-- dump date 20140619_051639 -- class Genbank::misc_feature -- table misc_feature_note -- id note 340322000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 340322000002 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 340322000003 Walker A motif; other site 340322000004 ATP binding site [chemical binding]; other site 340322000005 Walker B motif; other site 340322000006 arginine finger; other site 340322000007 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 340322000008 DnaA box-binding interface [nucleotide binding]; other site 340322000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 340322000010 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 340322000011 putative DNA binding surface [nucleotide binding]; other site 340322000012 dimer interface [polypeptide binding]; other site 340322000013 beta-clamp/clamp loader binding surface; other site 340322000014 beta-clamp/translesion DNA polymerase binding surface; other site 340322000015 recombination protein F; Reviewed; Region: recF; PRK00064 340322000016 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 340322000017 Walker A/P-loop; other site 340322000018 ATP binding site [chemical binding]; other site 340322000019 Q-loop/lid; other site 340322000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322000021 ABC transporter signature motif; other site 340322000022 Walker B; other site 340322000023 D-loop; other site 340322000024 H-loop/switch region; other site 340322000025 hypothetical protein; Provisional; Region: PRK00111 340322000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 340322000027 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 340322000028 ATP binding site [chemical binding]; other site 340322000029 Mg2+ binding site [ion binding]; other site 340322000030 G-X-G motif; other site 340322000031 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 340322000032 anchoring element; other site 340322000033 dimer interface [polypeptide binding]; other site 340322000034 ATP binding site [chemical binding]; other site 340322000035 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 340322000036 active site 340322000037 putative metal-binding site [ion binding]; other site 340322000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 340322000039 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 340322000040 Predicted membrane protein [Function unknown]; Region: COG2364 340322000041 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 340322000042 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340322000043 DNA gyrase subunit A; Validated; Region: PRK05560 340322000044 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 340322000045 CAP-like domain; other site 340322000046 active site 340322000047 primary dimer interface [polypeptide binding]; other site 340322000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000054 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 340322000055 Amino acid permease; Region: AA_permease; pfam00324 340322000056 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 340322000057 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 340322000058 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322000059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 340322000060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 340322000061 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322000062 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 340322000063 NAD(P) binding site [chemical binding]; other site 340322000064 catalytic residues [active] 340322000065 Predicted membrane protein [Function unknown]; Region: COG2855 340322000066 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322000067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322000068 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 340322000069 dimerization interface [polypeptide binding]; other site 340322000070 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 340322000071 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 340322000072 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322000073 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 340322000074 Penicillinase repressor; Region: Pencillinase_R; pfam03965 340322000075 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 340322000076 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322000077 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322000078 active site 340322000079 metal binding site [ion binding]; metal-binding site 340322000080 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 340322000081 Protein of unknown function (DUF418); Region: DUF418; cl12135 340322000082 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322000083 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 340322000084 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 340322000085 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 340322000086 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 340322000087 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 340322000088 putative active site [active] 340322000089 putative metal binding site [ion binding]; other site 340322000090 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 340322000091 putative ADP-binding pocket [chemical binding]; other site 340322000092 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322000093 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 340322000094 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322000095 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 340322000096 Bacterial sugar transferase; Region: Bac_transf; pfam02397 340322000097 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 340322000098 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322000099 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 340322000100 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 340322000101 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 340322000102 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 340322000103 Divergent AAA domain; Region: AAA_4; pfam04326 340322000104 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340322000105 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 340322000106 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 340322000107 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 340322000108 intersubunit interface [polypeptide binding]; other site 340322000109 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 340322000110 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 340322000111 ABC-ATPase subunit interface; other site 340322000112 dimer interface [polypeptide binding]; other site 340322000113 putative PBP binding regions; other site 340322000114 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322000115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322000116 Walker A/P-loop; other site 340322000117 ATP binding site [chemical binding]; other site 340322000118 Q-loop/lid; other site 340322000119 ABC transporter signature motif; other site 340322000120 Walker B; other site 340322000121 D-loop; other site 340322000122 H-loop/switch region; other site 340322000123 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 340322000124 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 340322000125 putative ligand binding site [chemical binding]; other site 340322000126 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 340322000127 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 340322000128 TM-ABC transporter signature motif; other site 340322000129 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322000130 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 340322000131 Walker A/P-loop; other site 340322000132 ATP binding site [chemical binding]; other site 340322000133 Q-loop/lid; other site 340322000134 ABC transporter signature motif; other site 340322000135 Walker B; other site 340322000136 D-loop; other site 340322000137 H-loop/switch region; other site 340322000138 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 340322000139 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 340322000140 active site 340322000141 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 340322000142 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 340322000143 Helix-turn-helix domain; Region: HTH_18; pfam12833 340322000144 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 340322000145 putative septation inhibitor protein; Reviewed; Region: PRK00159 340322000146 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340322000147 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340322000148 active site 340322000149 ATP binding site [chemical binding]; other site 340322000150 substrate binding site [chemical binding]; other site 340322000151 activation loop (A-loop); other site 340322000152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 340322000153 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 340322000154 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 340322000155 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 340322000156 PASTA domain; Region: PASTA; pfam03793 340322000157 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340322000158 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340322000159 active site 340322000160 ATP binding site [chemical binding]; other site 340322000161 substrate binding site [chemical binding]; other site 340322000162 activation loop (A-loop); other site 340322000163 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 340322000164 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 340322000165 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 340322000166 Protein phosphatase 2C; Region: PP2C; pfam00481 340322000167 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 340322000168 active site 340322000169 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 340322000170 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 340322000171 phosphopeptide binding site; other site 340322000172 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 340322000173 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 340322000174 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 340322000175 phosphopeptide binding site; other site 340322000176 putative succinate dehydrogenase; Reviewed; Region: PRK12842 340322000177 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322000178 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000179 putative substrate translocation pore; other site 340322000180 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 340322000181 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 340322000182 Predicted oxidoreductase [General function prediction only]; Region: COG3573 340322000183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000184 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 340322000185 NAD(P) binding site [chemical binding]; other site 340322000186 active site 340322000187 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322000188 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 340322000189 putative DNA binding site [nucleotide binding]; other site 340322000190 putative Zn2+ binding site [ion binding]; other site 340322000191 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322000192 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 340322000193 succinic semialdehyde dehydrogenase; Region: PLN02278 340322000194 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 340322000195 tetramerization interface [polypeptide binding]; other site 340322000196 NAD(P) binding site [chemical binding]; other site 340322000197 catalytic residues [active] 340322000198 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322000199 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 340322000200 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 340322000201 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 340322000202 active site residue [active] 340322000203 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 340322000204 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 340322000205 active site residue [active] 340322000206 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 340322000207 active site residue [active] 340322000208 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 340322000209 putative homodimer interface [polypeptide binding]; other site 340322000210 putative homotetramer interface [polypeptide binding]; other site 340322000211 putative allosteric switch controlling residues; other site 340322000212 putative metal binding site [ion binding]; other site 340322000213 putative homodimer-homodimer interface [polypeptide binding]; other site 340322000214 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 340322000215 putative metal binding residues [ion binding]; other site 340322000216 signature motif; other site 340322000217 dimer interface [polypeptide binding]; other site 340322000218 active site 340322000219 polyP binding site; other site 340322000220 substrate binding site [chemical binding]; other site 340322000221 acceptor-phosphate pocket; other site 340322000222 MgtC family; Region: MgtC; pfam02308 340322000223 Spore coat assembly protein [Cell envelope biogenesis, outer membrane]; Region: CotH; COG5337 340322000224 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 340322000225 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 340322000226 oligomer interface [polypeptide binding]; other site 340322000227 metal binding site [ion binding]; metal-binding site 340322000228 metal binding site [ion binding]; metal-binding site 340322000229 putative Cl binding site [ion binding]; other site 340322000230 basic sphincter; other site 340322000231 hydrophobic gate; other site 340322000232 periplasmic entrance; other site 340322000233 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 340322000234 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 340322000235 dimer interface [polypeptide binding]; other site 340322000236 hexamer interface [polypeptide binding]; other site 340322000237 active site 2 [active] 340322000238 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 340322000239 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 340322000240 putative ion selectivity filter; other site 340322000241 putative pore gating glutamate residue; other site 340322000242 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 340322000243 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 340322000244 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 340322000245 putative active site [active] 340322000246 PhoH-like protein; Region: PhoH; pfam02562 340322000247 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 340322000248 Citrate transporter; Region: CitMHS; pfam03600 340322000249 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 340322000250 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 340322000251 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 340322000252 ATP binding site [chemical binding]; other site 340322000253 Mg2+ binding site [ion binding]; other site 340322000254 G-X-G motif; other site 340322000255 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 340322000256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322000257 active site 340322000258 phosphorylation site [posttranslational modification] 340322000259 intermolecular recognition site; other site 340322000260 dimerization interface [polypeptide binding]; other site 340322000261 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 340322000262 putative DNA binding site [nucleotide binding]; other site 340322000263 putative Zn2+ binding site [ion binding]; other site 340322000264 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 340322000265 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 340322000266 putative ligand binding site [chemical binding]; other site 340322000267 putative NAD binding site [chemical binding]; other site 340322000268 catalytic site [active] 340322000269 biotin synthase; Validated; Region: PRK06256 340322000270 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 340322000271 FeS/SAM binding site; other site 340322000272 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 340322000273 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 340322000274 CHY zinc finger; Region: zf-CHY; pfam05495 340322000275 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 340322000276 cytosine deaminase; Provisional; Region: PRK09230 340322000277 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 340322000278 active site 340322000279 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 340322000280 NAD-dependent deacetylase; Provisional; Region: PRK05333 340322000281 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 340322000282 Lipase (class 2); Region: Lipase_2; pfam01674 340322000283 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 340322000284 Lipase (class 2); Region: Lipase_2; pfam01674 340322000285 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322000286 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 340322000287 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 340322000288 alpha-gamma subunit interface [polypeptide binding]; other site 340322000289 beta-gamma subunit interface [polypeptide binding]; other site 340322000290 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 340322000291 gamma-beta subunit interface [polypeptide binding]; other site 340322000292 alpha-beta subunit interface [polypeptide binding]; other site 340322000293 urease subunit alpha; Reviewed; Region: ureC; PRK13207 340322000294 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 340322000295 subunit interactions [polypeptide binding]; other site 340322000296 active site 340322000297 flap region; other site 340322000298 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 340322000299 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 340322000300 dimer interface [polypeptide binding]; other site 340322000301 catalytic residues [active] 340322000302 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 340322000303 UreF; Region: UreF; pfam01730 340322000304 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 340322000305 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 340322000306 HSP90 family protein; Provisional; Region: PRK14083 340322000307 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 340322000308 ATP binding site [chemical binding]; other site 340322000309 Mg2+ binding site [ion binding]; other site 340322000310 G-X-G motif; other site 340322000311 AMP nucleosidase; Region: AMP-nucleosdse; TIGR01717 340322000312 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 340322000313 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 340322000314 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 340322000315 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 340322000316 NAD binding site [chemical binding]; other site 340322000317 catalytic Zn binding site [ion binding]; other site 340322000318 structural Zn binding site [ion binding]; other site 340322000319 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000320 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000321 DNA binding site [nucleotide binding] 340322000322 domain linker motif; other site 340322000323 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 340322000324 dimerization interface [polypeptide binding]; other site 340322000325 ligand binding site [chemical binding]; other site 340322000326 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 340322000327 histidinol dehydrogenase; Region: hisD; TIGR00069 340322000328 NAD binding site [chemical binding]; other site 340322000329 dimerization interface [polypeptide binding]; other site 340322000330 product binding site; other site 340322000331 substrate binding site [chemical binding]; other site 340322000332 zinc binding site [ion binding]; other site 340322000333 catalytic residues [active] 340322000334 Citrate transporter; Region: CitMHS; pfam03600 340322000335 fructuronate transporter; Provisional; Region: PRK10034; cl15264 340322000336 DDE domain; Region: DDE_Tnp_IS240; pfam13610 340322000337 Integrase core domain; Region: rve; pfam00665 340322000338 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 340322000339 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 340322000340 Multicopper oxidase; Region: Cu-oxidase; pfam00394 340322000341 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 340322000342 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322000343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322000344 active site 340322000345 phosphorylation site [posttranslational modification] 340322000346 intermolecular recognition site; other site 340322000347 dimerization interface [polypeptide binding]; other site 340322000348 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 340322000349 DNA binding site [nucleotide binding] 340322000350 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 340322000351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322000352 dimerization interface [polypeptide binding]; other site 340322000353 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 340322000354 dimer interface [polypeptide binding]; other site 340322000355 phosphorylation site [posttranslational modification] 340322000356 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 340322000357 ATP binding site [chemical binding]; other site 340322000358 Mg2+ binding site [ion binding]; other site 340322000359 G-X-G motif; other site 340322000360 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 340322000361 metal-binding site [ion binding] 340322000362 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 340322000363 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000364 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 340322000365 motif I; other site 340322000366 motif II; other site 340322000367 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 340322000368 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 340322000369 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 340322000370 AsnC family; Region: AsnC_trans_reg; pfam01037 340322000371 DDE domain; Region: DDE_Tnp_IS240; pfam13610 340322000372 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 340322000373 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000374 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 340322000375 motif II; other site 340322000376 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 340322000377 metal-binding site [ion binding] 340322000378 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 340322000379 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 340322000380 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322000381 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 340322000382 catalytic residues [active] 340322000383 catalytic nucleophile [active] 340322000384 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322000385 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322000386 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322000387 Synaptic Site I dimer interface [polypeptide binding]; other site 340322000388 DNA binding site [nucleotide binding] 340322000389 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 340322000390 DNA-binding interface [nucleotide binding]; DNA binding site 340322000391 DDE superfamily endonuclease; Region: DDE_3; pfam13358 340322000392 Vitamin K epoxide reductase family in bacteria; Region: VKOR_5; cd12922 340322000393 putative active site [active] 340322000394 redox center [active] 340322000395 Thioredoxin; Region: Thioredoxin_4; pfam13462 340322000396 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 340322000397 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 340322000398 dimerization interface [polypeptide binding]; other site 340322000399 putative DNA binding site [nucleotide binding]; other site 340322000400 putative Zn2+ binding site [ion binding]; other site 340322000401 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 340322000402 Peptidase family M23; Region: Peptidase_M23; pfam01551 340322000403 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 340322000404 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 340322000405 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 340322000406 Copper resistance protein D; Region: CopD; pfam05425 340322000407 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 340322000408 CopC domain; Region: CopC; pfam04234 340322000409 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 340322000410 dimerization interface [polypeptide binding]; other site 340322000411 putative DNA binding site [nucleotide binding]; other site 340322000412 putative Zn2+ binding site [ion binding]; other site 340322000413 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 340322000414 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000415 Soluble P-type ATPase [General function prediction only]; Region: COG4087 340322000416 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 340322000417 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 340322000418 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000419 Soluble P-type ATPase [General function prediction only]; Region: COG4087 340322000420 Homeodomain-like domain; Region: HTH_23; pfam13384 340322000421 Winged helix-turn helix; Region: HTH_29; pfam13551 340322000422 Homeodomain-like domain; Region: HTH_32; pfam13565 340322000423 DDE superfamily endonuclease; Region: DDE_3; pfam13358 340322000424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 340322000425 DDE superfamily endonuclease; Region: DDE_5; cl17874 340322000426 Integrase core domain; Region: rve_3; pfam13683 340322000427 HTH-like domain; Region: HTH_21; pfam13276 340322000428 Integrase core domain; Region: rve; pfam00665 340322000429 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 340322000430 Helix-turn-helix domain; Region: HTH_38; pfam13936 340322000431 Integrase core domain; Region: rve; pfam00665 340322000432 Transposase; Region: HTH_Tnp_1; cl17663 340322000433 Cadmium resistance transporter; Region: Cad; pfam03596 340322000434 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 340322000435 dimerization interface [polypeptide binding]; other site 340322000436 putative DNA binding site [nucleotide binding]; other site 340322000437 putative Zn2+ binding site [ion binding]; other site 340322000438 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 340322000439 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 340322000440 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322000441 FeoA domain; Region: FeoA; pfam04023 340322000442 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 340322000443 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 340322000444 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322000445 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 340322000446 catalytic residues [active] 340322000447 catalytic nucleophile [active] 340322000448 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322000449 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322000450 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322000451 Synaptic Site I dimer interface [polypeptide binding]; other site 340322000452 DNA binding site [nucleotide binding] 340322000453 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 340322000454 DNA-binding interface [nucleotide binding]; DNA binding site 340322000455 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322000456 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 340322000457 catalytic residues [active] 340322000458 catalytic nucleophile [active] 340322000459 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322000460 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322000461 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322000462 Synaptic Site I dimer interface [polypeptide binding]; other site 340322000463 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 340322000464 DNA-binding interface [nucleotide binding]; DNA binding site 340322000465 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 340322000466 dimerization interface [polypeptide binding]; other site 340322000467 putative DNA binding site [nucleotide binding]; other site 340322000468 putative Zn2+ binding site [ion binding]; other site 340322000469 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 340322000470 Cadmium resistance transporter; Region: Cad; pfam03596 340322000471 mercuric reductase; Region: MerA; TIGR02053 340322000472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322000473 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322000474 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 340322000475 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 340322000476 DNA binding residues [nucleotide binding] 340322000477 dimer interface [polypeptide binding]; other site 340322000478 metal binding site [ion binding]; metal-binding site 340322000479 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 340322000480 salt bridge; other site 340322000481 non-specific DNA binding site [nucleotide binding]; other site 340322000482 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340322000483 sequence-specific DNA binding site [nucleotide binding]; other site 340322000484 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 340322000485 catalytic tetrad [active] 340322000486 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 340322000487 active site 340322000488 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 340322000489 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 340322000490 Walker A motif; other site 340322000491 ATP binding site [chemical binding]; other site 340322000492 Walker B motif; other site 340322000493 arginine finger; other site 340322000494 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 340322000495 DDE domain; Region: DDE_Tnp_IS240; pfam13610 340322000496 Integrase core domain; Region: rve; pfam00665 340322000497 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 340322000498 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 340322000499 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322000500 NAD(P) binding site [chemical binding]; other site 340322000501 catalytic residues [active] 340322000502 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 340322000503 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322000504 active site 340322000505 catalytic tetrad [active] 340322000506 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 340322000507 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 340322000508 amidohydrolase; Region: amidohydrolases; TIGR01891 340322000509 metal binding site [ion binding]; metal-binding site 340322000510 Predicted membrane protein [Function unknown]; Region: COG2149 340322000511 Domain of unknown function (DUF202); Region: DUF202; pfam02656 340322000512 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 340322000513 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340322000514 non-specific DNA binding site [nucleotide binding]; other site 340322000515 salt bridge; other site 340322000516 sequence-specific DNA binding site [nucleotide binding]; other site 340322000517 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322000518 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 340322000519 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 340322000520 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 340322000521 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 340322000522 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 340322000523 active site 340322000524 motif I; other site 340322000525 motif II; other site 340322000526 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 340322000527 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340322000528 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 340322000529 catalytic core [active] 340322000530 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 340322000531 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 340322000532 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 340322000533 polyol permease family; Region: 2A0118; TIGR00897 340322000534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000535 putative substrate translocation pore; other site 340322000536 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322000537 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 340322000538 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 340322000539 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 340322000540 D-xylulose kinase; Region: XylB; TIGR01312 340322000541 nucleotide binding site [chemical binding]; other site 340322000542 Pantoate-beta-alanine ligase; Region: PanC; cd00560 340322000543 pantoate--beta-alanine ligase; Region: panC; TIGR00018 340322000544 active site 340322000545 ATP-binding site [chemical binding]; other site 340322000546 pantoate-binding site; other site 340322000547 HXXH motif; other site 340322000548 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 340322000549 oligomerization interface [polypeptide binding]; other site 340322000550 active site 340322000551 metal binding site [ion binding]; metal-binding site 340322000552 Fic family protein [Function unknown]; Region: COG3177 340322000553 Fic/DOC family; Region: Fic; pfam02661 340322000554 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 340322000555 active site 340322000556 DNA binding site [nucleotide binding] 340322000557 hypothetical protein; Provisional; Region: PRK07758 340322000558 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 340322000559 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 340322000560 substrate binding pocket [chemical binding]; other site 340322000561 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 340322000562 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 340322000563 motif II; other site 340322000564 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 340322000565 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 340322000566 trimer interface [polypeptide binding]; other site 340322000567 putative metal binding site [ion binding]; other site 340322000568 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 340322000569 putative DNA binding site [nucleotide binding]; other site 340322000570 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340322000571 enterobactin exporter EntS; Provisional; Region: PRK10489 340322000572 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000573 putative substrate translocation pore; other site 340322000574 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 340322000575 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 340322000576 DXD motif; other site 340322000577 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 340322000578 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 340322000579 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 340322000580 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 340322000581 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322000582 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 340322000583 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 340322000584 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 340322000585 active site 340322000586 intersubunit interface [polypeptide binding]; other site 340322000587 catalytic residue [active] 340322000588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000589 D-galactonate transporter; Region: 2A0114; TIGR00893 340322000590 putative substrate translocation pore; other site 340322000591 AAA domain; Region: AAA_33; pfam13671 340322000592 AAA domain; Region: AAA_17; pfam13207 340322000593 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 340322000594 Predicted permeases [General function prediction only]; Region: RarD; COG2962 340322000595 Predicted membrane protein [Function unknown]; Region: COG2860 340322000596 UPF0126 domain; Region: UPF0126; pfam03458 340322000597 UPF0126 domain; Region: UPF0126; pfam03458 340322000598 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 340322000599 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 340322000600 tetramerization interface [polypeptide binding]; other site 340322000601 active site 340322000602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 340322000603 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 340322000604 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 340322000605 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 340322000606 hypothetical protein; Provisional; Region: PRK10621 340322000607 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 340322000608 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 340322000609 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 340322000610 putative Mg++ binding site [ion binding]; other site 340322000611 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 340322000612 nucleotide binding region [chemical binding]; other site 340322000613 ATP-binding site [chemical binding]; other site 340322000614 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 340322000615 maltose O-acetyltransferase; Provisional; Region: PRK10092 340322000616 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 340322000617 active site 340322000618 substrate binding site [chemical binding]; other site 340322000619 trimer interface [polypeptide binding]; other site 340322000620 CoA binding site [chemical binding]; other site 340322000621 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 340322000622 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 340322000623 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 340322000624 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 340322000625 RNA binding surface [nucleotide binding]; other site 340322000626 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 340322000627 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340322000628 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 340322000629 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 340322000630 DNA binding site [nucleotide binding] 340322000631 active site 340322000632 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 340322000633 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 340322000634 homotrimer interaction site [polypeptide binding]; other site 340322000635 putative active site [active] 340322000636 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 340322000637 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 340322000638 active site 340322000639 Zn binding site [ion binding]; other site 340322000640 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 340322000641 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 340322000642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322000643 DNA-binding site [nucleotide binding]; DNA binding site 340322000644 UTRA domain; Region: UTRA; pfam07702 340322000645 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 340322000646 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 340322000647 substrate binding site [chemical binding]; other site 340322000648 ATP binding site [chemical binding]; other site 340322000649 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 340322000650 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 340322000651 tetrameric interface [polypeptide binding]; other site 340322000652 NAD binding site [chemical binding]; other site 340322000653 catalytic residues [active] 340322000654 KduI/IolB family; Region: KduI; cl01508 340322000655 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 340322000656 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 340322000657 PYR/PP interface [polypeptide binding]; other site 340322000658 dimer interface [polypeptide binding]; other site 340322000659 TPP binding site [chemical binding]; other site 340322000660 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 340322000661 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 340322000662 TPP-binding site; other site 340322000663 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322000664 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322000665 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322000666 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322000667 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322000668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000669 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322000670 putative substrate translocation pore; other site 340322000671 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322000672 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322000673 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322000674 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340322000675 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000676 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000677 DNA binding site [nucleotide binding] 340322000678 domain linker motif; other site 340322000679 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 340322000680 dimerization interface [polypeptide binding]; other site 340322000681 ligand binding site [chemical binding]; other site 340322000682 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322000683 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322000684 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322000685 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322000686 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 340322000687 DNA-binding site [nucleotide binding]; DNA binding site 340322000688 RNA-binding motif; other site 340322000689 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 340322000690 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322000691 dimer interface [polypeptide binding]; other site 340322000692 conserved gate region; other site 340322000693 putative PBP binding loops; other site 340322000694 ABC-ATPase subunit interface; other site 340322000695 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322000696 dimer interface [polypeptide binding]; other site 340322000697 conserved gate region; other site 340322000698 putative PBP binding loops; other site 340322000699 ABC-ATPase subunit interface; other site 340322000700 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 340322000701 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 340322000702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322000703 Walker A/P-loop; other site 340322000704 ATP binding site [chemical binding]; other site 340322000705 Q-loop/lid; other site 340322000706 ABC transporter signature motif; other site 340322000707 Walker B; other site 340322000708 D-loop; other site 340322000709 H-loop/switch region; other site 340322000710 TOBE domain; Region: TOBE_2; pfam08402 340322000711 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 340322000712 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 340322000713 motif II; other site 340322000714 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000715 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000716 DNA binding site [nucleotide binding] 340322000717 domain linker motif; other site 340322000718 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 340322000719 dimerization interface [polypeptide binding]; other site 340322000720 ligand binding site [chemical binding]; other site 340322000721 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 340322000722 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 340322000723 S-adenosylmethionine binding site [chemical binding]; other site 340322000724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322000725 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 340322000726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 340322000727 Coenzyme A binding pocket [chemical binding]; other site 340322000728 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000729 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000730 DNA binding site [nucleotide binding] 340322000731 domain linker motif; other site 340322000732 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 340322000733 dimerization interface [polypeptide binding]; other site 340322000734 ligand binding site [chemical binding]; other site 340322000735 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 340322000736 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000737 putative substrate translocation pore; other site 340322000738 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000739 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 340322000740 PAS domain; Region: PAS_9; pfam13426 340322000741 putative active site [active] 340322000742 heme pocket [chemical binding]; other site 340322000743 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 340322000744 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 340322000745 active site 340322000746 dimer interface [polypeptide binding]; other site 340322000747 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 340322000748 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 340322000749 active site 340322000750 FMN binding site [chemical binding]; other site 340322000751 substrate binding site [chemical binding]; other site 340322000752 3Fe-4S cluster binding site [ion binding]; other site 340322000753 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 340322000754 domain interface; other site 340322000755 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 340322000756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 340322000757 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 340322000758 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 340322000759 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 340322000760 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 340322000761 short chain dehydrogenase; Provisional; Region: PRK07904 340322000762 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 340322000763 NAD(P) binding site [chemical binding]; other site 340322000764 active site 340322000765 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340322000766 FAD binding domain; Region: FAD_binding_4; pfam01565 340322000767 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 340322000768 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 340322000769 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 340322000770 Predicted membrane protein [Function unknown]; Region: COG2246 340322000771 GtrA-like protein; Region: GtrA; pfam04138 340322000772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 340322000773 MOSC domain; Region: MOSC; pfam03473 340322000774 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322000775 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 340322000776 active site 340322000777 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 340322000778 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 340322000779 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 340322000780 Walker A/P-loop; other site 340322000781 ATP binding site [chemical binding]; other site 340322000782 Q-loop/lid; other site 340322000783 ABC transporter signature motif; other site 340322000784 Walker B; other site 340322000785 D-loop; other site 340322000786 H-loop/switch region; other site 340322000787 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 340322000788 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 340322000789 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 340322000790 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 340322000791 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 340322000792 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 340322000793 NAD(P) binding site [chemical binding]; other site 340322000794 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 340322000795 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 340322000796 hypothetical protein; Provisional; Region: PRK11568 340322000797 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK05597 340322000798 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 340322000799 ATP binding site [chemical binding]; other site 340322000800 substrate interface [chemical binding]; other site 340322000801 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 340322000802 active site residue [active] 340322000803 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 340322000804 MoaE homodimer interface [polypeptide binding]; other site 340322000805 MoaD interaction [polypeptide binding]; other site 340322000806 active site residues [active] 340322000807 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 340322000808 MPT binding site; other site 340322000809 trimer interface [polypeptide binding]; other site 340322000810 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 340322000811 trimer interface [polypeptide binding]; other site 340322000812 dimer interface [polypeptide binding]; other site 340322000813 putative active site [active] 340322000814 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 340322000815 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 340322000816 dimer interface [polypeptide binding]; other site 340322000817 putative functional site; other site 340322000818 putative MPT binding site; other site 340322000819 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 340322000820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322000821 dimer interface [polypeptide binding]; other site 340322000822 conserved gate region; other site 340322000823 putative PBP binding loops; other site 340322000824 ABC-ATPase subunit interface; other site 340322000825 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 340322000826 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 340322000827 Ubiquitin-like proteins; Region: UBQ; cl00155 340322000828 charged pocket; other site 340322000829 hydrophobic patch; other site 340322000830 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 340322000831 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 340322000832 Walker A/P-loop; other site 340322000833 ATP binding site [chemical binding]; other site 340322000834 Q-loop/lid; other site 340322000835 ABC transporter signature motif; other site 340322000836 Walker B; other site 340322000837 D-loop; other site 340322000838 H-loop/switch region; other site 340322000839 Predicted membrane protein [Function unknown]; Region: COG1950 340322000840 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 340322000841 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 340322000842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322000843 homodimer interface [polypeptide binding]; other site 340322000844 catalytic residue [active] 340322000845 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 340322000846 MgtE intracellular N domain; Region: MgtE_N; pfam03448 340322000847 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 340322000848 Divalent cation transporter; Region: MgtE; cl00786 340322000849 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 340322000850 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 340322000851 transmembrane helices; other site 340322000852 prephenate dehydrogenase; Validated; Region: PRK06545 340322000853 prephenate dehydrogenase; Validated; Region: PRK08507 340322000854 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 340322000855 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 340322000856 nucleoside/Zn binding site; other site 340322000857 dimer interface [polypeptide binding]; other site 340322000858 catalytic motif [active] 340322000859 CsbD-like; Region: CsbD; cl17424 340322000860 MMPL family; Region: MMPL; pfam03176 340322000861 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 340322000862 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 340322000863 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 340322000864 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322000865 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322000866 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322000867 Q-loop/lid; other site 340322000868 ABC transporter signature motif; other site 340322000869 Walker B; other site 340322000870 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 340322000871 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 340322000872 active site 340322000873 HIGH motif; other site 340322000874 nucleotide binding site [chemical binding]; other site 340322000875 active site 340322000876 KMSKS motif; other site 340322000877 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 340322000878 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 340322000879 putative active site [active] 340322000880 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 340322000881 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 340322000882 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322000883 catalytic residue [active] 340322000884 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 340322000885 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 340322000886 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 340322000887 Walker A motif; other site 340322000888 ATP binding site [chemical binding]; other site 340322000889 Walker B motif; other site 340322000890 arginine finger; other site 340322000891 hypothetical protein; Validated; Region: PRK00153 340322000892 recombination protein RecR; Reviewed; Region: recR; PRK00076 340322000893 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 340322000894 RecR protein; Region: RecR; pfam02132 340322000895 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 340322000896 putative active site [active] 340322000897 putative metal-binding site [ion binding]; other site 340322000898 tetramer interface [polypeptide binding]; other site 340322000899 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 340322000900 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 340322000901 acyl-activating enzyme (AAE) consensus motif; other site 340322000902 AMP binding site [chemical binding]; other site 340322000903 active site 340322000904 CoA binding site [chemical binding]; other site 340322000905 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 340322000906 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 340322000907 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 340322000908 putative trimer interface [polypeptide binding]; other site 340322000909 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 340322000910 putative CoA binding site [chemical binding]; other site 340322000911 putative CoA binding site [chemical binding]; other site 340322000912 putative trimer interface [polypeptide binding]; other site 340322000913 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 340322000914 putative trimer interface [polypeptide binding]; other site 340322000915 putative CoA binding site [chemical binding]; other site 340322000916 Predicted membrane protein [Function unknown]; Region: COG2311 340322000917 Protein of unknown function (DUF418); Region: DUF418; pfam04235 340322000918 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 340322000919 catalytic triad [active] 340322000920 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 340322000921 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322000922 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 340322000923 DNA polymerase III subunit epsilon; Validated; Region: PRK05601 340322000924 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 340322000925 active site 340322000926 substrate binding site [chemical binding]; other site 340322000927 2-isopropylmalate synthase; Validated; Region: PRK03739 340322000928 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 340322000929 active site 340322000930 catalytic residues [active] 340322000931 metal binding site [ion binding]; metal-binding site 340322000932 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 340322000933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322000934 aspartate kinase; Reviewed; Region: PRK06635 340322000935 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 340322000936 putative nucleotide binding site [chemical binding]; other site 340322000937 putative catalytic residues [active] 340322000938 putative Mg ion binding site [ion binding]; other site 340322000939 putative aspartate binding site [chemical binding]; other site 340322000940 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 340322000941 putative allosteric regulatory site; other site 340322000942 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 340322000943 putative allosteric regulatory residue; other site 340322000944 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 340322000945 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 340322000946 RNA polymerase sigma factor; Provisional; Region: PRK12535 340322000947 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322000948 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 340322000949 DNA binding residues [nucleotide binding] 340322000950 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 340322000951 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 340322000952 heme binding pocket [chemical binding]; other site 340322000953 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 340322000954 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 340322000955 AsnC family; Region: AsnC_trans_reg; pfam01037 340322000956 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 340322000957 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 340322000958 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 340322000959 dimerization interface [polypeptide binding]; other site 340322000960 putative DNA binding site [nucleotide binding]; other site 340322000961 putative Zn2+ binding site [ion binding]; other site 340322000962 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 340322000963 arsenical-resistance protein; Region: acr3; TIGR00832 340322000964 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322000965 active site 340322000966 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322000967 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 340322000968 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 340322000969 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12654 340322000970 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 340322000971 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 340322000972 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 340322000973 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 340322000974 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 340322000975 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 340322000976 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 340322000977 Predicted membrane protein [Function unknown]; Region: COG1511 340322000978 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 340322000979 Malonate transporter MadL subunit; Region: MadL; cl04273 340322000980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322000981 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 340322000982 dimerization interface [polypeptide binding]; other site 340322000983 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 340322000984 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 340322000985 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 340322000986 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 340322000987 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 340322000988 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 340322000989 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 340322000990 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 340322000991 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 340322000992 Coenzyme A transferase; Region: CoA_trans; cl17247 340322000993 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322000994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322000995 active site 340322000996 phosphorylation site [posttranslational modification] 340322000997 intermolecular recognition site; other site 340322000998 dimerization interface [polypeptide binding]; other site 340322000999 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 340322001000 DNA binding site [nucleotide binding] 340322001001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322001002 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 340322001003 dimerization interface [polypeptide binding]; other site 340322001004 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 340322001005 dimer interface [polypeptide binding]; other site 340322001006 phosphorylation site [posttranslational modification] 340322001007 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 340322001008 ATP binding site [chemical binding]; other site 340322001009 Mg2+ binding site [ion binding]; other site 340322001010 G-X-G motif; other site 340322001011 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340322001012 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 340322001013 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 340322001014 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322001015 putative active site [active] 340322001016 putative metal binding site [ion binding]; other site 340322001017 Yqey-like protein; Region: YqeY; pfam09424 340322001018 Transglycosylase; Region: Transgly; pfam00912 340322001019 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 340322001020 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 340322001021 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 340322001022 Transcription factor WhiB; Region: Whib; pfam02467 340322001023 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 340322001024 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 340322001025 homotrimer interaction site [polypeptide binding]; other site 340322001026 putative active site [active] 340322001027 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322001028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001029 putative substrate translocation pore; other site 340322001030 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 340322001031 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 340322001032 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 340322001033 acyl-activating enzyme (AAE) consensus motif; other site 340322001034 acyl-activating enzyme (AAE) consensus motif; other site 340322001035 putative AMP binding site [chemical binding]; other site 340322001036 putative active site [active] 340322001037 putative CoA binding site [chemical binding]; other site 340322001038 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 340322001039 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 340322001040 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322001041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001042 NAD(P) binding site [chemical binding]; other site 340322001043 active site 340322001044 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 340322001045 active site 340322001046 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 340322001047 acyl-coenzyme A oxidase; Region: PLN02526 340322001048 active site 340322001049 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 340322001050 putative active site [active] 340322001051 putative catalytic site [active] 340322001052 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 340322001053 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 340322001054 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 340322001055 ligand binding site [chemical binding]; other site 340322001056 flexible hinge region; other site 340322001057 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 340322001058 putative switch regulator; other site 340322001059 non-specific DNA interactions [nucleotide binding]; other site 340322001060 DNA binding site [nucleotide binding] 340322001061 sequence specific DNA binding site [nucleotide binding]; other site 340322001062 putative cAMP binding site [chemical binding]; other site 340322001063 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 340322001064 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 340322001065 minor groove reading motif; other site 340322001066 helix-hairpin-helix signature motif; other site 340322001067 substrate binding pocket [chemical binding]; other site 340322001068 active site 340322001069 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 340322001070 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 340322001071 catalytic residues [active] 340322001072 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 340322001073 putative active site [active] 340322001074 putative CoA binding site [chemical binding]; other site 340322001075 nudix motif; other site 340322001076 metal binding site [ion binding]; metal-binding site 340322001077 Colicin V production protein; Region: Colicin_V; pfam02674 340322001078 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 340322001079 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 340322001080 active site 340322001081 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 340322001082 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 340322001083 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 340322001084 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 340322001085 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 340322001086 motif II; other site 340322001087 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 340322001088 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 340322001089 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 340322001090 ATP binding site [chemical binding]; other site 340322001091 Walker A motif; other site 340322001092 hexamer interface [polypeptide binding]; other site 340322001093 Walker B motif; other site 340322001094 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 340322001095 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 340322001096 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 340322001097 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 340322001098 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 340322001099 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 340322001100 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 340322001101 ATP binding site [chemical binding]; other site 340322001102 putative Mg++ binding site [ion binding]; other site 340322001103 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 340322001104 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 340322001105 DNA-binding site [nucleotide binding]; DNA binding site 340322001106 RNA-binding motif; other site 340322001107 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 340322001108 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 340322001109 active site 340322001110 interdomain interaction site; other site 340322001111 putative metal-binding site [ion binding]; other site 340322001112 nucleotide binding site [chemical binding]; other site 340322001113 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 340322001114 domain I; other site 340322001115 DNA binding groove [nucleotide binding] 340322001116 phosphate binding site [ion binding]; other site 340322001117 domain II; other site 340322001118 domain III; other site 340322001119 nucleotide binding site [chemical binding]; other site 340322001120 catalytic site [active] 340322001121 domain IV; other site 340322001122 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 340322001123 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 340322001124 YhhN-like protein; Region: YhhN; pfam07947 340322001125 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 340322001126 dimerization interface [polypeptide binding]; other site 340322001127 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 340322001128 cyclase homology domain; Region: CHD; cd07302 340322001129 nucleotidyl binding site; other site 340322001130 metal binding site [ion binding]; metal-binding site 340322001131 dimer interface [polypeptide binding]; other site 340322001132 DNA polymerase III subunit delta'; Validated; Region: PRK07940 340322001133 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 340322001134 Walker A motif; other site 340322001135 ATP binding site [chemical binding]; other site 340322001136 Walker B motif; other site 340322001137 arginine finger; other site 340322001138 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 340322001139 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 340322001140 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 340322001141 active site 340322001142 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 340322001143 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 340322001144 RNA binding surface [nucleotide binding]; other site 340322001145 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 340322001146 active site 340322001147 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 340322001148 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 340322001149 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 340322001150 S-(hydroxymethyl)mycothiol dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 340322001151 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 340322001152 NAD binding site [chemical binding]; other site 340322001153 catalytic Zn binding site [ion binding]; other site 340322001154 substrate binding site [chemical binding]; other site 340322001155 structural Zn binding site [ion binding]; other site 340322001156 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 340322001157 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 340322001158 classical (c) SDRs; Region: SDR_c; cd05233 340322001159 NAD(P) binding site [chemical binding]; other site 340322001160 active site 340322001161 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340322001162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001163 NAD(P) binding site [chemical binding]; other site 340322001164 active site 340322001165 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 340322001166 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 340322001167 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 340322001168 Ligand binding site; other site 340322001169 Putative Catalytic site; other site 340322001170 DXD motif; other site 340322001171 Ribonuclease HI [DNA replication, recombination, and repair]; Region: RnhA; COG0328 340322001172 RNA/DNA hybrid binding site [nucleotide binding]; other site 340322001173 active site 340322001174 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322001175 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 340322001176 Probable Catalytic site; other site 340322001177 metal-binding site 340322001178 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 340322001179 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 340322001180 putative active site [active] 340322001181 putative metal binding site [ion binding]; other site 340322001182 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 340322001183 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 340322001184 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 340322001185 putative NAD(P) binding site [chemical binding]; other site 340322001186 putative substrate binding site [chemical binding]; other site 340322001187 catalytic Zn binding site [ion binding]; other site 340322001188 structural Zn binding site [ion binding]; other site 340322001189 dimer interface [polypeptide binding]; other site 340322001190 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 340322001191 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 340322001192 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 340322001193 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 340322001194 substrate binding site; other site 340322001195 tetramer interface; other site 340322001196 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 340322001197 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 340322001198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001199 NAD(P) binding site [chemical binding]; other site 340322001200 active site 340322001201 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 340322001202 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 340322001203 NAD binding site [chemical binding]; other site 340322001204 substrate binding site [chemical binding]; other site 340322001205 homodimer interface [polypeptide binding]; other site 340322001206 active site 340322001207 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 340322001208 dimer interface [polypeptide binding]; other site 340322001209 FMN binding site [chemical binding]; other site 340322001210 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 340322001211 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322001212 siderophore binding site; other site 340322001213 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 340322001214 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 340322001215 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 340322001216 Zn binding site [ion binding]; other site 340322001217 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 340322001218 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 340322001219 Excalibur calcium-binding domain; Region: Excalibur; smart00894 340322001220 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 340322001221 Putative esterase; Region: Esterase; pfam00756 340322001222 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 340322001223 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 340322001224 active site 340322001225 homodimer interface [polypeptide binding]; other site 340322001226 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 340322001227 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 340322001228 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 340322001229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 340322001230 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 340322001231 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322001232 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 340322001233 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 340322001234 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 340322001235 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 340322001236 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 340322001237 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 340322001238 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 340322001239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322001240 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322001241 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 340322001242 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 340322001243 active site 340322001244 tetramer interface; other site 340322001245 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 340322001246 putative deacylase active site [active] 340322001247 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340322001248 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 340322001249 non-specific DNA binding site [nucleotide binding]; other site 340322001250 salt bridge; other site 340322001251 sequence-specific DNA binding site [nucleotide binding]; other site 340322001252 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 340322001253 Domain of unknown function (DUF955); Region: DUF955; pfam06114 340322001254 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 340322001255 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 340322001256 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 340322001257 putative Iron-sulfur protein interface [polypeptide binding]; other site 340322001258 proximal heme binding site [chemical binding]; other site 340322001259 distal heme binding site [chemical binding]; other site 340322001260 putative dimer interface [polypeptide binding]; other site 340322001261 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 340322001262 L-aspartate oxidase; Provisional; Region: PRK06175 340322001263 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 340322001264 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 340322001265 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 340322001266 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322001267 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 340322001268 intersubunit interface [polypeptide binding]; other site 340322001269 Uncharacterized conserved protein [Function unknown]; Region: COG4127 340322001270 Restriction endonuclease; Region: Mrr_cat; pfam04471 340322001271 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 340322001272 Predicted membrane protein [Function unknown]; Region: COG2733 340322001273 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 340322001274 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322001275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322001276 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322001277 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001278 putative substrate translocation pore; other site 340322001279 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001280 putative substrate translocation pore; other site 340322001281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001282 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322001283 putative substrate translocation pore; other site 340322001284 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 340322001285 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 340322001286 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 340322001287 putative active site [active] 340322001288 putative substrate binding site [chemical binding]; other site 340322001289 putative cosubstrate binding site; other site 340322001290 catalytic site [active] 340322001291 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 340322001292 intersubunit interface [polypeptide binding]; other site 340322001293 active site 340322001294 catalytic residue [active] 340322001295 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 340322001296 putative homodimer interface [polypeptide binding]; other site 340322001297 putative homotetramer interface [polypeptide binding]; other site 340322001298 putative allosteric switch controlling residues; other site 340322001299 putative metal binding site [ion binding]; other site 340322001300 putative homodimer-homodimer interface [polypeptide binding]; other site 340322001301 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340322001302 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 340322001303 metal-binding site [ion binding] 340322001304 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322001305 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 340322001306 ATP-dependent protease Lon; Provisional; Region: PRK13765 340322001307 Htaa; Region: HtaA; pfam04213 340322001308 Htaa; Region: HtaA; pfam04213 340322001309 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 340322001310 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 340322001311 intersubunit interface [polypeptide binding]; other site 340322001312 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322001313 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 340322001314 dimer interface [polypeptide binding]; other site 340322001315 putative PBP binding regions; other site 340322001316 ABC-ATPase subunit interface; other site 340322001317 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 340322001318 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322001319 Walker A/P-loop; other site 340322001320 ATP binding site [chemical binding]; other site 340322001321 Q-loop/lid; other site 340322001322 ABC transporter signature motif; other site 340322001323 Walker B; other site 340322001324 D-loop; other site 340322001325 H-loop/switch region; other site 340322001326 Htaa; Region: HtaA; pfam04213 340322001327 Htaa; Region: HtaA; pfam04213 340322001328 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 340322001329 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 340322001330 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 340322001331 FAD binding domain; Region: FAD_binding_4; pfam01565 340322001332 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 340322001333 hypothetical protein; Provisional; Region: PRK07758 340322001334 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 340322001335 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 340322001336 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 340322001337 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 340322001338 acyl-activating enzyme (AAE) consensus motif; other site 340322001339 AMP binding site [chemical binding]; other site 340322001340 active site 340322001341 CoA binding site [chemical binding]; other site 340322001342 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 340322001343 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 340322001344 putative ADP-binding pocket [chemical binding]; other site 340322001345 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 340322001346 catalytic core [active] 340322001347 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 340322001348 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 340322001349 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 340322001350 dimer interface [polypeptide binding]; other site 340322001351 phosphorylation site [posttranslational modification] 340322001352 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 340322001353 ATP binding site [chemical binding]; other site 340322001354 Mg2+ binding site [ion binding]; other site 340322001355 G-X-G motif; other site 340322001356 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322001357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322001358 active site 340322001359 phosphorylation site [posttranslational modification] 340322001360 intermolecular recognition site; other site 340322001361 dimerization interface [polypeptide binding]; other site 340322001362 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 340322001363 DNA binding site [nucleotide binding] 340322001364 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340322001365 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340322001366 FtsX-like permease family; Region: FtsX; pfam02687 340322001367 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340322001368 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340322001369 FtsX-like permease family; Region: FtsX; pfam02687 340322001370 exopolyphosphatase; Region: exo_poly_only; TIGR03706 340322001371 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 340322001372 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 340322001373 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 340322001374 DNA binding domain, excisionase family; Region: excise; TIGR01764 340322001375 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 340322001376 HAD-superfamily subfamily IB hydrolase, TIGR01490; Region: HAD-SF-IB-hyp1 340322001377 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 340322001378 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 340322001379 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 340322001380 tRNA; other site 340322001381 putative tRNA binding site [nucleotide binding]; other site 340322001382 putative NADP binding site [chemical binding]; other site 340322001383 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 340322001384 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 340322001385 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 340322001386 domain interfaces; other site 340322001387 active site 340322001388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322001389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322001390 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 340322001391 dimerization interface [polypeptide binding]; other site 340322001392 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001393 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322001394 putative substrate translocation pore; other site 340322001395 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322001396 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 340322001397 AP (apurinic/apyrimidinic) site pocket; other site 340322001398 DNA interaction; other site 340322001399 Metal-binding active site; metal-binding site 340322001400 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 340322001401 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 340322001402 active site 340322001403 metal binding site [ion binding]; metal-binding site 340322001404 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 340322001405 active site 340322001406 Fe binding site [ion binding]; other site 340322001407 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 340322001408 Dehydroquinase class II; Region: DHquinase_II; pfam01220 340322001409 active site 340322001410 trimer interface [polypeptide binding]; other site 340322001411 dimer interface [polypeptide binding]; other site 340322001412 quinate/shikimate dehydrogenase; Provisional; Region: PRK14027 340322001413 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 340322001414 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 340322001415 shikimate binding site; other site 340322001416 NAD(P) binding site [chemical binding]; other site 340322001417 Ribosomal protein L7/L12 [Translation, ribosomal structure and biogenesis]; Region: RplL; COG0222 340322001418 L11 interface [polypeptide binding]; other site 340322001419 putative EF-Tu interaction site [polypeptide binding]; other site 340322001420 putative EF-G interaction site [polypeptide binding]; other site 340322001421 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 340322001422 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 340322001423 Walker A/P-loop; other site 340322001424 ATP binding site [chemical binding]; other site 340322001425 Q-loop/lid; other site 340322001426 ABC transporter signature motif; other site 340322001427 Walker B; other site 340322001428 D-loop; other site 340322001429 H-loop/switch region; other site 340322001430 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 340322001431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322001432 dimer interface [polypeptide binding]; other site 340322001433 conserved gate region; other site 340322001434 putative PBP binding loops; other site 340322001435 ABC-ATPase subunit interface; other site 340322001436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 340322001437 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 340322001438 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 340322001439 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 340322001440 active site 340322001441 homodimer interface [polypeptide binding]; other site 340322001442 SAM binding site [chemical binding]; other site 340322001443 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 340322001444 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 340322001445 active site 340322001446 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 340322001447 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 340322001448 dimer interface [polypeptide binding]; other site 340322001449 active site 340322001450 Schiff base residues; other site 340322001451 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340322001452 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322001453 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 340322001454 substrate binding site [chemical binding]; other site 340322001455 active site 340322001456 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 340322001457 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 340322001458 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 340322001459 inhibitor-cofactor binding pocket; inhibition site 340322001460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322001461 catalytic residue [active] 340322001462 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 340322001463 catalytic core [active] 340322001464 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 340322001465 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 340322001466 catalytic residues [active] 340322001467 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 340322001468 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 340322001469 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 340322001470 ResB-like family; Region: ResB; pfam05140 340322001471 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 340322001472 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 340322001473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322001474 dimer interface [polypeptide binding]; other site 340322001475 conserved gate region; other site 340322001476 putative PBP binding loops; other site 340322001477 ABC-ATPase subunit interface; other site 340322001478 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 340322001479 NMT1/THI5 like; Region: NMT1; pfam09084 340322001480 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 340322001481 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 340322001482 Walker A/P-loop; other site 340322001483 ATP binding site [chemical binding]; other site 340322001484 Q-loop/lid; other site 340322001485 ABC transporter signature motif; other site 340322001486 Walker B; other site 340322001487 D-loop; other site 340322001488 H-loop/switch region; other site 340322001489 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340322001490 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 340322001491 active site 340322001492 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 340322001493 homotrimer interaction site [polypeptide binding]; other site 340322001494 putative active site [active] 340322001495 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 340322001496 putative DNA binding site [nucleotide binding]; other site 340322001497 dimerization interface [polypeptide binding]; other site 340322001498 putative Zn2+ binding site [ion binding]; other site 340322001499 Protein of unknown function (DUF4229); Region: DUF4229; pfam14012 340322001500 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 340322001501 UbiA prenyltransferase family; Region: UbiA; pfam01040 340322001502 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 340322001503 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 340322001504 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 340322001505 acyl-activating enzyme (AAE) consensus motif; other site 340322001506 AMP binding site [chemical binding]; other site 340322001507 active site 340322001508 CoA binding site [chemical binding]; other site 340322001509 Predicted membrane protein [Function unknown]; Region: COG2259 340322001510 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 340322001511 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 340322001512 dimer interface [polypeptide binding]; other site 340322001513 NADP binding site [chemical binding]; other site 340322001514 catalytic residues [active] 340322001515 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 340322001516 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 340322001517 putative active site [active] 340322001518 catalytic residue [active] 340322001519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322001520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322001521 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 340322001522 putative dimerization interface [polypeptide binding]; other site 340322001523 putative substrate binding pocket [chemical binding]; other site 340322001524 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 340322001525 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 340322001526 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 340322001527 active site 340322001528 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 340322001529 active site 1 [active] 340322001530 active site 2 [active] 340322001531 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 340322001532 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 340322001533 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322001534 catalytic residues [active] 340322001535 catalytic nucleophile [active] 340322001536 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322001537 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322001538 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322001539 Synaptic Site I dimer interface [polypeptide binding]; other site 340322001540 DNA binding site [nucleotide binding] 340322001541 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 340322001542 DNA-binding interface [nucleotide binding]; DNA binding site 340322001543 Uncharacterized conserved protein [Function unknown]; Region: COG1479 340322001544 Protein of unknown function DUF262; Region: DUF262; pfam03235 340322001545 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 340322001546 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 340322001547 DNA binding site [nucleotide binding] 340322001548 active site 340322001549 DDE domain; Region: DDE_Tnp_IS240; pfam13610 340322001550 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322001551 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322001552 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 340322001553 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322001554 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 340322001555 dimerization interface [polypeptide binding]; other site 340322001556 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 340322001557 dimer interface [polypeptide binding]; other site 340322001558 phosphorylation site [posttranslational modification] 340322001559 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 340322001560 ATP binding site [chemical binding]; other site 340322001561 Mg2+ binding site [ion binding]; other site 340322001562 G-X-G motif; other site 340322001563 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322001564 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322001565 active site 340322001566 phosphorylation site [posttranslational modification] 340322001567 intermolecular recognition site; other site 340322001568 dimerization interface [polypeptide binding]; other site 340322001569 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 340322001570 DNA binding site [nucleotide binding] 340322001571 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 340322001572 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 340322001573 active site 340322001574 DDE domain; Region: DDE_Tnp_IS240; pfam13610 340322001575 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 340322001576 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 340322001577 DDE domain; Region: DDE_Tnp_IS240; pfam13610 340322001578 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 340322001579 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 340322001580 LGFP repeat; Region: LGFP; pfam08310 340322001581 LGFP repeat; Region: LGFP; pfam08310 340322001582 LGFP repeat; Region: LGFP; pfam08310 340322001583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 340322001584 Integrase core domain; Region: rve; pfam00665 340322001585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 340322001586 Integrase core domain; Region: rve; pfam00665 340322001587 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 340322001588 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 340322001589 catalytic residues [active] 340322001590 catalytic nucleophile [active] 340322001591 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322001592 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322001593 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322001594 Synaptic Site I dimer interface [polypeptide binding]; other site 340322001595 DNA binding site [nucleotide binding] 340322001596 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 340322001597 DNA-binding interface [nucleotide binding]; DNA binding site 340322001598 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 340322001599 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322001600 catalytic residues [active] 340322001601 catalytic nucleophile [active] 340322001602 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322001603 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322001604 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322001605 Synaptic Site I dimer interface [polypeptide binding]; other site 340322001606 DNA binding site [nucleotide binding] 340322001607 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 340322001608 DNA-binding interface [nucleotide binding]; DNA binding site 340322001609 DDE domain; Region: DDE_Tnp_IS240; pfam13610 340322001610 Integrase core domain; Region: rve; pfam00665 340322001611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 340322001612 Predicted membrane protein [Function unknown]; Region: COG4325 340322001613 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 340322001614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 340322001615 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 340322001616 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 340322001617 substrate binding site [chemical binding]; other site 340322001618 oxyanion hole (OAH) forming residues; other site 340322001619 trimer interface [polypeptide binding]; other site 340322001620 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 340322001621 aromatic arch; other site 340322001622 DCoH dimer interaction site [polypeptide binding]; other site 340322001623 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 340322001624 DCoH tetramer interaction site [polypeptide binding]; other site 340322001625 substrate binding site [chemical binding]; other site 340322001626 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 340322001627 catalytic triad [active] 340322001628 active site nucleophile [active] 340322001629 O-succinylbenzoate synthase; Provisional; Region: PRK02901 340322001630 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 340322001631 active site 340322001632 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 340322001633 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 340322001634 dimer interface [polypeptide binding]; other site 340322001635 tetramer interface [polypeptide binding]; other site 340322001636 PYR/PP interface [polypeptide binding]; other site 340322001637 TPP binding site [chemical binding]; other site 340322001638 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 340322001639 TPP-binding site; other site 340322001640 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322001641 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 340322001642 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 340322001643 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 340322001644 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 340322001645 S-adenosylmethionine binding site [chemical binding]; other site 340322001646 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 340322001647 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340322001648 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340322001649 substrate binding pocket [chemical binding]; other site 340322001650 chain length determination region; other site 340322001651 substrate-Mg2+ binding site; other site 340322001652 catalytic residues [active] 340322001653 aspartate-rich region 1; other site 340322001654 active site lid residues [active] 340322001655 aspartate-rich region 2; other site 340322001656 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 340322001657 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 340322001658 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 340322001659 putative homodimer interface [polypeptide binding]; other site 340322001660 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 340322001661 heterodimer interface [polypeptide binding]; other site 340322001662 homodimer interface [polypeptide binding]; other site 340322001663 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 340322001664 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 340322001665 23S rRNA interface [nucleotide binding]; other site 340322001666 L7/L12 interface [polypeptide binding]; other site 340322001667 putative thiostrepton binding site; other site 340322001668 L25 interface [polypeptide binding]; other site 340322001669 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 340322001670 mRNA/rRNA interface [nucleotide binding]; other site 340322001671 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 340322001672 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 340322001673 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 340322001674 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 340322001675 inhibitor-cofactor binding pocket; inhibition site 340322001676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322001677 catalytic residue [active] 340322001678 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322001679 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 340322001680 tetramerization interface [polypeptide binding]; other site 340322001681 NAD(P) binding site [chemical binding]; other site 340322001682 catalytic residues [active] 340322001683 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 340322001684 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 340322001685 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 340322001686 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322001687 Soluble P-type ATPase [General function prediction only]; Region: COG4087 340322001688 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 340322001689 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 340322001690 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 340322001691 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 340322001692 23S rRNA interface [nucleotide binding]; other site 340322001693 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 340322001694 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 340322001695 core dimer interface [polypeptide binding]; other site 340322001696 peripheral dimer interface [polypeptide binding]; other site 340322001697 L10 interface [polypeptide binding]; other site 340322001698 L11 interface [polypeptide binding]; other site 340322001699 putative EF-Tu interaction site [polypeptide binding]; other site 340322001700 putative EF-G interaction site [polypeptide binding]; other site 340322001701 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 340322001702 Tetraspanin family; Region: Tetraspannin; pfam00335 340322001703 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 340322001704 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 340322001705 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 340322001706 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 340322001707 RPB1 interaction site [polypeptide binding]; other site 340322001708 RPB10 interaction site [polypeptide binding]; other site 340322001709 RPB11 interaction site [polypeptide binding]; other site 340322001710 RPB3 interaction site [polypeptide binding]; other site 340322001711 RPB12 interaction site [polypeptide binding]; other site 340322001712 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 340322001713 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 340322001714 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 340322001715 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 340322001716 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 340322001717 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 340322001718 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 340322001719 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 340322001720 G-loop; other site 340322001721 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 340322001722 DNA binding site [nucleotide binding] 340322001723 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 340322001724 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 340322001725 salt bridge; other site 340322001726 non-specific DNA binding site [nucleotide binding]; other site 340322001727 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340322001728 sequence-specific DNA binding site [nucleotide binding]; other site 340322001729 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322001730 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 340322001731 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 340322001732 S17 interaction site [polypeptide binding]; other site 340322001733 S8 interaction site; other site 340322001734 16S rRNA interaction site [nucleotide binding]; other site 340322001735 streptomycin interaction site [chemical binding]; other site 340322001736 23S rRNA interaction site [nucleotide binding]; other site 340322001737 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 340322001738 30S ribosomal protein S7; Validated; Region: PRK05302 340322001739 elongation factor G; Reviewed; Region: PRK00007 340322001740 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 340322001741 G1 box; other site 340322001742 putative GEF interaction site [polypeptide binding]; other site 340322001743 GTP/Mg2+ binding site [chemical binding]; other site 340322001744 Switch I region; other site 340322001745 G2 box; other site 340322001746 G3 box; other site 340322001747 Switch II region; other site 340322001748 G4 box; other site 340322001749 G5 box; other site 340322001750 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 340322001751 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 340322001752 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 340322001753 elongation factor Tu; Reviewed; Region: PRK00049 340322001754 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 340322001755 G1 box; other site 340322001756 GEF interaction site [polypeptide binding]; other site 340322001757 GTP/Mg2+ binding site [chemical binding]; other site 340322001758 Switch I region; other site 340322001759 G2 box; other site 340322001760 G3 box; other site 340322001761 Switch II region; other site 340322001762 G4 box; other site 340322001763 G5 box; other site 340322001764 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 340322001765 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 340322001766 Antibiotic Binding Site [chemical binding]; other site 340322001767 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322001768 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322001769 Walker A/P-loop; other site 340322001770 ATP binding site [chemical binding]; other site 340322001771 Q-loop/lid; other site 340322001772 ABC transporter signature motif; other site 340322001773 Walker B; other site 340322001774 D-loop; other site 340322001775 H-loop/switch region; other site 340322001776 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322001777 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 340322001778 ABC-ATPase subunit interface; other site 340322001779 dimer interface [polypeptide binding]; other site 340322001780 putative PBP binding regions; other site 340322001781 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 340322001782 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 340322001783 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 340322001784 ABC-ATPase subunit interface; other site 340322001785 dimer interface [polypeptide binding]; other site 340322001786 putative PBP binding regions; other site 340322001787 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 340322001788 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 340322001789 conserved cys residue [active] 340322001790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 340322001791 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 340322001792 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 340322001793 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 340322001794 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 340322001795 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 340322001796 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 340322001797 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 340322001798 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 340322001799 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 340322001800 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 340322001801 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 340322001802 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 340322001803 putative translocon binding site; other site 340322001804 protein-rRNA interface [nucleotide binding]; other site 340322001805 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 340322001806 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 340322001807 G-X-X-G motif; other site 340322001808 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 340322001809 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 340322001810 23S rRNA interface [nucleotide binding]; other site 340322001811 5S rRNA interface [nucleotide binding]; other site 340322001812 putative antibiotic binding site [chemical binding]; other site 340322001813 L25 interface [polypeptide binding]; other site 340322001814 L27 interface [polypeptide binding]; other site 340322001815 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 340322001816 putative translocon interaction site; other site 340322001817 23S rRNA interface [nucleotide binding]; other site 340322001818 signal recognition particle (SRP54) interaction site; other site 340322001819 L23 interface [polypeptide binding]; other site 340322001820 trigger factor interaction site; other site 340322001821 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 340322001822 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 340322001823 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 340322001824 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 340322001825 RNA binding site [nucleotide binding]; other site 340322001826 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 340322001827 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 340322001828 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 340322001829 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 340322001830 active site 340322001831 catalytic triad [active] 340322001832 oxyanion hole [active] 340322001833 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 340322001834 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322001835 active site 340322001836 catalytic tetrad [active] 340322001837 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 340322001838 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 340322001839 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 340322001840 putative molybdopterin cofactor binding site [chemical binding]; other site 340322001841 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 340322001842 putative molybdopterin cofactor binding site; other site 340322001843 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322001844 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 340322001845 Walker A/P-loop; other site 340322001846 ATP binding site [chemical binding]; other site 340322001847 Q-loop/lid; other site 340322001848 ABC transporter signature motif; other site 340322001849 Walker B; other site 340322001850 D-loop; other site 340322001851 H-loop/switch region; other site 340322001852 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322001853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322001854 Walker A/P-loop; other site 340322001855 ATP binding site [chemical binding]; other site 340322001856 Q-loop/lid; other site 340322001857 ABC transporter signature motif; other site 340322001858 Walker B; other site 340322001859 D-loop; other site 340322001860 H-loop/switch region; other site 340322001861 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 340322001862 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 340322001863 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 340322001864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322001865 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 340322001866 Coenzyme A binding pocket [chemical binding]; other site 340322001867 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 340322001868 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 340322001869 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340322001870 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340322001871 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 340322001872 5S rRNA interface [nucleotide binding]; other site 340322001873 L27 interface [polypeptide binding]; other site 340322001874 23S rRNA interface [nucleotide binding]; other site 340322001875 L5 interface [polypeptide binding]; other site 340322001876 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 340322001877 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 340322001878 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 340322001879 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 340322001880 23S rRNA binding site [nucleotide binding]; other site 340322001881 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 340322001882 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322001883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001884 putative substrate translocation pore; other site 340322001885 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 340322001886 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 340322001887 acyl-activating enzyme (AAE) consensus motif; other site 340322001888 AMP binding site [chemical binding]; other site 340322001889 active site 340322001890 CoA binding site [chemical binding]; other site 340322001891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322001892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322001893 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 340322001894 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 340322001895 CoenzymeA binding site [chemical binding]; other site 340322001896 subunit interaction site [polypeptide binding]; other site 340322001897 PHB binding site; other site 340322001898 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 340322001899 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 340322001900 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 340322001901 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 340322001902 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 340322001903 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 340322001904 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 340322001905 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 340322001906 FAD binding pocket [chemical binding]; other site 340322001907 FAD binding motif [chemical binding]; other site 340322001908 phosphate binding motif [ion binding]; other site 340322001909 beta-alpha-beta structure motif; other site 340322001910 NAD(p) ribose binding residues [chemical binding]; other site 340322001911 NAD binding pocket [chemical binding]; other site 340322001912 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 340322001913 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 340322001914 catalytic loop [active] 340322001915 iron binding site [ion binding]; other site 340322001916 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 340322001917 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 340322001918 substrate binding site [chemical binding]; other site 340322001919 oxyanion hole (OAH) forming residues; other site 340322001920 trimer interface [polypeptide binding]; other site 340322001921 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 340322001922 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 340322001923 dimer interface [polypeptide binding]; other site 340322001924 active site 340322001925 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 340322001926 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 340322001927 substrate binding site [chemical binding]; other site 340322001928 oxyanion hole (OAH) forming residues; other site 340322001929 trimer interface [polypeptide binding]; other site 340322001930 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 340322001931 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 340322001932 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 340322001933 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 340322001934 CoenzymeA binding site [chemical binding]; other site 340322001935 subunit interaction site [polypeptide binding]; other site 340322001936 PHB binding site; other site 340322001937 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 340322001938 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 340322001939 substrate binding site [chemical binding]; other site 340322001940 dimer interface [polypeptide binding]; other site 340322001941 NADP binding site [chemical binding]; other site 340322001942 catalytic residues [active] 340322001943 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 340322001944 active site 2 [active] 340322001945 active site 1 [active] 340322001946 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322001947 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 340322001948 NAD binding site [chemical binding]; other site 340322001949 catalytic residues [active] 340322001950 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 340322001951 Zn2+ binding site [ion binding]; other site 340322001952 Mg2+ binding site [ion binding]; other site 340322001953 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 340322001954 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322001955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322001956 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 340322001957 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 340322001958 catalytic loop [active] 340322001959 iron binding site [ion binding]; other site 340322001960 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322001961 classical (c) SDRs; Region: SDR_c; cd05233 340322001962 NAD(P) binding site [chemical binding]; other site 340322001963 active site 340322001964 hypothetical protein; Provisional; Region: PRK08296 340322001965 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 340322001966 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 340322001967 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 340322001968 Cytochrome P450; Region: p450; cl12078 340322001969 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322001970 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 340322001971 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322001972 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 340322001973 SecY translocase; Region: SecY; pfam00344 340322001974 adenylate kinase; Reviewed; Region: adk; PRK00279 340322001975 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 340322001976 AMP-binding site [chemical binding]; other site 340322001977 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 340322001978 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 340322001979 active site 340322001980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 340322001981 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 340322001982 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 340322001983 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 340322001984 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 340322001985 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 340322001986 Right handed beta helix region; Region: Beta_helix; pfam13229 340322001987 Right handed beta helix region; Region: Beta_helix; pfam13229 340322001988 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 340322001989 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 340322001990 NAD binding site [chemical binding]; other site 340322001991 homodimer interface [polypeptide binding]; other site 340322001992 active site 340322001993 substrate binding site [chemical binding]; other site 340322001994 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 340322001995 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 340322001996 DXD motif; other site 340322001997 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340322001998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001999 NAD(P) binding site [chemical binding]; other site 340322002000 active site 340322002001 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 340322002002 rRNA binding site [nucleotide binding]; other site 340322002003 predicted 30S ribosome binding site; other site 340322002004 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 340322002005 30S ribosomal protein S13; Region: bact_S13; TIGR03631 340322002006 30S ribosomal protein S11; Validated; Region: PRK05309 340322002007 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 340322002008 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 340322002009 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 340322002010 RNA binding surface [nucleotide binding]; other site 340322002011 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 340322002012 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 340322002013 alphaNTD - beta interaction site [polypeptide binding]; other site 340322002014 alphaNTD homodimer interface [polypeptide binding]; other site 340322002015 alphaNTD - beta' interaction site [polypeptide binding]; other site 340322002016 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 340322002017 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 340322002018 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 340322002019 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 340322002020 dimerization interface 3.5A [polypeptide binding]; other site 340322002021 active site 340322002022 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322002023 Coenzyme A binding pocket [chemical binding]; other site 340322002024 type VII secretion protein EccB, Actinobacterial; Region: T7SS_EccB; TIGR03919 340322002025 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340322002026 FAD binding domain; Region: FAD_binding_4; pfam01565 340322002027 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 340322002028 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 340322002029 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 340322002030 S-adenosylmethionine binding site [chemical binding]; other site 340322002031 TIGR02611 family protein; Region: TIGR02611 340322002032 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 340322002033 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 340322002034 active site 340322002035 catalytic residues [active] 340322002036 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 340322002037 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 340322002038 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 340322002039 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 340322002040 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 340322002041 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 340322002042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 340322002043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 340322002044 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 340322002045 23S rRNA interface [nucleotide binding]; other site 340322002046 L3 interface [polypeptide binding]; other site 340322002047 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 340322002048 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 340322002049 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 340322002050 active site 340322002051 substrate binding site [chemical binding]; other site 340322002052 metal binding site [ion binding]; metal-binding site 340322002053 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 340322002054 alanine racemase; Reviewed; Region: alr; PRK00053 340322002055 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 340322002056 active site 340322002057 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322002058 dimer interface [polypeptide binding]; other site 340322002059 substrate binding site [chemical binding]; other site 340322002060 catalytic residues [active] 340322002061 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 340322002062 Predicted permease [General function prediction only]; Region: COG2985 340322002063 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 340322002064 TrkA-C domain; Region: TrkA_C; pfam02080 340322002065 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 340322002066 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 340322002067 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 340322002068 Glycoprotease family; Region: Peptidase_M22; pfam00814 340322002069 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 340322002070 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322002071 Coenzyme A binding pocket [chemical binding]; other site 340322002072 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 340322002073 UGMP family protein; Validated; Region: PRK09604 340322002074 Uncharacterized conserved protein [Function unknown]; Region: COG0062 340322002075 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 340322002076 putative substrate binding site [chemical binding]; other site 340322002077 putative ATP binding site [chemical binding]; other site 340322002078 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 340322002079 oligomerisation interface [polypeptide binding]; other site 340322002080 mobile loop; other site 340322002081 roof hairpin; other site 340322002082 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 340322002083 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 340322002084 ring oligomerisation interface [polypeptide binding]; other site 340322002085 ATP/Mg binding site [chemical binding]; other site 340322002086 stacking interactions; other site 340322002087 hinge regions; other site 340322002088 Transcription factor WhiB; Region: Whib; pfam02467 340322002089 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 340322002090 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 340322002091 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 340322002092 DNA binding residues [nucleotide binding] 340322002093 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 340322002094 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 340322002095 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 340322002096 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 340322002097 active site 340322002098 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 340322002099 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 340322002100 phosphate binding site [ion binding]; other site 340322002101 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 340322002102 EamA-like transporter family; Region: EamA; pfam00892 340322002103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322002104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322002105 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 340322002106 putative dimerization interface [polypeptide binding]; other site 340322002107 GMP synthase; Reviewed; Region: guaA; PRK00074 340322002108 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 340322002109 AMP/PPi binding site [chemical binding]; other site 340322002110 candidate oxyanion hole; other site 340322002111 catalytic triad [active] 340322002112 potential glutamine specificity residues [chemical binding]; other site 340322002113 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 340322002114 ATP Binding subdomain [chemical binding]; other site 340322002115 Ligand Binding sites [chemical binding]; other site 340322002116 Dimerization subdomain; other site 340322002117 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 340322002118 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 340322002119 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322002120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322002121 active site 340322002122 phosphorylation site [posttranslational modification] 340322002123 intermolecular recognition site; other site 340322002124 dimerization interface [polypeptide binding]; other site 340322002125 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 340322002126 dimerization interface [polypeptide binding]; other site 340322002127 DNA binding residues [nucleotide binding] 340322002128 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 340322002129 CT1975-like protein; Region: Cas_CT1975; pfam09344 340322002130 DNA Polymerase Y-family; Region: PolY_like; cd03468 340322002131 active site 340322002132 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 340322002133 DNA binding site [nucleotide binding] 340322002134 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 340322002135 putative dimer interface [polypeptide binding]; other site 340322002136 putative [2Fe-2S] cluster binding site [ion binding]; other site 340322002137 prenyltransferase; Reviewed; Region: ubiA; PRK13105 340322002138 UbiA prenyltransferase family; Region: UbiA; pfam01040 340322002139 phytoene desaturase; Region: crtI_fam; TIGR02734 340322002140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 340322002141 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 340322002142 active site lid residues [active] 340322002143 substrate binding pocket [chemical binding]; other site 340322002144 catalytic residues [active] 340322002145 substrate-Mg2+ binding site; other site 340322002146 aspartate-rich region 1; other site 340322002147 aspartate-rich region 2; other site 340322002148 MMPL family; Region: MMPL; pfam03176 340322002149 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340322002150 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340322002151 substrate binding pocket [chemical binding]; other site 340322002152 chain length determination region; other site 340322002153 substrate-Mg2+ binding site; other site 340322002154 catalytic residues [active] 340322002155 aspartate-rich region 1; other site 340322002156 active site lid residues [active] 340322002157 aspartate-rich region 2; other site 340322002158 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322002159 MarR family; Region: MarR_2; pfam12802 340322002160 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 340322002161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322002162 NAD(P) binding site [chemical binding]; other site 340322002163 active site 340322002164 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 340322002165 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 340322002166 DNA photolyase; Region: DNA_photolyase; pfam00875 340322002167 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 340322002168 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322002169 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 340322002170 Walker A/P-loop; other site 340322002171 ATP binding site [chemical binding]; other site 340322002172 Q-loop/lid; other site 340322002173 ABC transporter signature motif; other site 340322002174 Walker B; other site 340322002175 D-loop; other site 340322002176 H-loop/switch region; other site 340322002177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322002178 dimer interface [polypeptide binding]; other site 340322002179 conserved gate region; other site 340322002180 putative PBP binding loops; other site 340322002181 ABC-ATPase subunit interface; other site 340322002182 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 340322002183 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 340322002184 Walker A/P-loop; other site 340322002185 ATP binding site [chemical binding]; other site 340322002186 Q-loop/lid; other site 340322002187 ABC transporter signature motif; other site 340322002188 Walker B; other site 340322002189 D-loop; other site 340322002190 H-loop/switch region; other site 340322002191 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 340322002192 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 340322002193 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 340322002194 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 340322002195 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 340322002196 active site 340322002197 PHP Thumb interface [polypeptide binding]; other site 340322002198 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 340322002199 generic binding surface II; other site 340322002200 generic binding surface I; other site 340322002201 Uncharacterized conserved protein [Function unknown]; Region: COG3402 340322002202 Predicted membrane protein [Function unknown]; Region: COG3428 340322002203 Bacterial PH domain; Region: DUF304; pfam03703 340322002204 Bacterial PH domain; Region: DUF304; cl01348 340322002205 Bacterial PH domain; Region: DUF304; pfam03703 340322002206 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 340322002207 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 340322002208 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322002209 FeoA domain; Region: FeoA; pfam04023 340322002210 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 340322002211 NAD-dependent deacetylase; Provisional; Region: PRK00481 340322002212 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 340322002213 NAD+ binding site [chemical binding]; other site 340322002214 substrate binding site [chemical binding]; other site 340322002215 Zn binding site [ion binding]; other site 340322002216 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 340322002217 nucleoside/Zn binding site; other site 340322002218 dimer interface [polypeptide binding]; other site 340322002219 catalytic motif [active] 340322002220 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 340322002221 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002222 siderophore binding site; other site 340322002223 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 340322002224 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 340322002225 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 340322002226 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 340322002227 homodimer interface [polypeptide binding]; other site 340322002228 NADP binding site [chemical binding]; other site 340322002229 substrate binding site [chemical binding]; other site 340322002230 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 340322002231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 340322002232 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 340322002233 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 340322002234 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 340322002235 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 340322002236 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002237 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322002238 putative substrate translocation pore; other site 340322002239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322002240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322002241 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 340322002242 putative substrate binding pocket [chemical binding]; other site 340322002243 dimerization interface [polypeptide binding]; other site 340322002244 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 340322002245 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322002246 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 340322002247 homotrimer interaction site [polypeptide binding]; other site 340322002248 putative active site [active] 340322002249 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 340322002250 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322002251 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 340322002252 metal binding site [ion binding]; metal-binding site 340322002253 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 340322002254 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 340322002255 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05613 340322002256 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 340322002257 homodimer interface [polypeptide binding]; other site 340322002258 substrate-cofactor binding pocket; other site 340322002259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002260 catalytic residue [active] 340322002261 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 340322002262 Carbon starvation protein CstA; Region: CstA; pfam02554 340322002263 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 340322002264 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 340322002265 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 340322002266 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 340322002267 tetramer interface [polypeptide binding]; other site 340322002268 active site 340322002269 Mg2+/Mn2+ binding site [ion binding]; other site 340322002270 citrate synthase; Provisional; Region: PRK14033 340322002271 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 340322002272 dimer interface [polypeptide binding]; other site 340322002273 active site 340322002274 citrylCoA binding site [chemical binding]; other site 340322002275 oxalacetate/citrate binding site [chemical binding]; other site 340322002276 coenzyme A binding site [chemical binding]; other site 340322002277 catalytic triad [active] 340322002278 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 340322002279 Transcriptional regulators [Transcription]; Region: GntR; COG1802 340322002280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322002281 DNA-binding site [nucleotide binding]; DNA binding site 340322002282 FCD domain; Region: FCD; pfam07729 340322002283 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 340322002284 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 340322002285 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 340322002286 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 340322002287 FAD binding pocket [chemical binding]; other site 340322002288 FAD binding motif [chemical binding]; other site 340322002289 phosphate binding motif [ion binding]; other site 340322002290 NAD binding pocket [chemical binding]; other site 340322002291 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322002292 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322002293 Walker A/P-loop; other site 340322002294 ATP binding site [chemical binding]; other site 340322002295 Q-loop/lid; other site 340322002296 ABC transporter signature motif; other site 340322002297 Walker B; other site 340322002298 D-loop; other site 340322002299 H-loop/switch region; other site 340322002300 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322002301 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 340322002302 ABC-ATPase subunit interface; other site 340322002303 dimer interface [polypeptide binding]; other site 340322002304 putative PBP binding regions; other site 340322002305 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 340322002306 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 340322002307 ABC-ATPase subunit interface; other site 340322002308 dimer interface [polypeptide binding]; other site 340322002309 putative PBP binding regions; other site 340322002310 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 340322002311 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002312 siderophore binding site; other site 340322002313 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 340322002314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002315 putative substrate translocation pore; other site 340322002316 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 340322002317 putative catalytic site [active] 340322002318 putative metal binding site [ion binding]; other site 340322002319 putative phosphate binding site [ion binding]; other site 340322002320 Predicted membrane protein [Function unknown]; Region: COG2860 340322002321 UPF0126 domain; Region: UPF0126; pfam03458 340322002322 UPF0126 domain; Region: UPF0126; pfam03458 340322002323 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 340322002324 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002325 intersubunit interface [polypeptide binding]; other site 340322002326 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322002327 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322002328 Walker A/P-loop; other site 340322002329 ATP binding site [chemical binding]; other site 340322002330 Q-loop/lid; other site 340322002331 ABC transporter signature motif; other site 340322002332 Walker B; other site 340322002333 D-loop; other site 340322002334 H-loop/switch region; other site 340322002335 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 340322002336 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 340322002337 ABC-ATPase subunit interface; other site 340322002338 dimer interface [polypeptide binding]; other site 340322002339 putative PBP binding regions; other site 340322002340 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 340322002341 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 340322002342 active site 340322002343 HIGH motif; other site 340322002344 dimer interface [polypeptide binding]; other site 340322002345 KMSKS motif; other site 340322002346 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 340322002347 RDD family; Region: RDD; pfam06271 340322002348 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 340322002349 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 340322002350 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 340322002351 NlpC/P60 family; Region: NLPC_P60; pfam00877 340322002352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322002353 active site 340322002354 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340322002355 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 340322002356 non-specific DNA binding site [nucleotide binding]; other site 340322002357 salt bridge; other site 340322002358 sequence-specific DNA binding site [nucleotide binding]; other site 340322002359 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 340322002360 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 340322002361 active site 340322002362 substrate binding site [chemical binding]; other site 340322002363 metal binding site [ion binding]; metal-binding site 340322002364 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322002365 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 340322002366 metal binding site [ion binding]; metal-binding site 340322002367 putative dimer interface [polypeptide binding]; other site 340322002368 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 340322002369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322002370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322002371 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322002372 pyruvate carboxylase; Reviewed; Region: PRK12999 340322002373 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322002374 ATP-grasp domain; Region: ATP-grasp_4; cl17255 340322002375 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 340322002376 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 340322002377 active site 340322002378 catalytic residues [active] 340322002379 metal binding site [ion binding]; metal-binding site 340322002380 homodimer binding site [polypeptide binding]; other site 340322002381 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 340322002382 carboxyltransferase (CT) interaction site; other site 340322002383 biotinylation site [posttranslational modification]; other site 340322002384 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 340322002385 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322002386 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 340322002387 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 340322002388 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 340322002389 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 340322002390 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 340322002391 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 340322002392 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 340322002393 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 340322002394 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 340322002395 tetramer interface [polypeptide binding]; other site 340322002396 active site 340322002397 Mg2+/Mn2+ binding site [ion binding]; other site 340322002398 citrate synthase; Provisional; Region: PRK14033 340322002399 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 340322002400 dimer interface [polypeptide binding]; other site 340322002401 active site 340322002402 citrylCoA binding site [chemical binding]; other site 340322002403 oxalacetate/citrate binding site [chemical binding]; other site 340322002404 coenzyme A binding site [chemical binding]; other site 340322002405 catalytic triad [active] 340322002406 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340322002407 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 340322002408 non-specific DNA binding site [nucleotide binding]; other site 340322002409 salt bridge; other site 340322002410 sequence-specific DNA binding site [nucleotide binding]; other site 340322002411 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 340322002412 Domain of unknown function (DUF955); Region: DUF955; pfam06114 340322002413 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 340322002414 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 340322002415 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322002416 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 340322002417 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 340322002418 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 340322002419 carboxyltransferase (CT) interaction site; other site 340322002420 biotinylation site [posttranslational modification]; other site 340322002421 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 340322002422 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 340322002423 active site residue [active] 340322002424 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 340322002425 active site residue [active] 340322002426 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 340322002427 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 340322002428 Maf-like protein; Region: Maf; pfam02545 340322002429 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 340322002430 active site 340322002431 dimer interface [polypeptide binding]; other site 340322002432 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 340322002433 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 340322002434 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 340322002435 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 340322002436 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 340322002437 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 340322002438 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 340322002439 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340322002440 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 340322002441 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 340322002442 ATP-grasp domain; Region: ATP-grasp; pfam02222 340322002443 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 340322002444 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 340322002445 Uncharacterized conserved protein [Function unknown]; Region: COG1434 340322002446 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 340322002447 putative active site [active] 340322002448 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 340322002449 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 340322002450 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 340322002451 active site 340322002452 non-prolyl cis peptide bond; other site 340322002453 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 340322002454 putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR; Region: BKR_2_SDR_c; cd05349 340322002455 putative NAD(P) binding site [chemical binding]; other site 340322002456 active site 340322002457 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 340322002458 RibD C-terminal domain; Region: RibD_C; cl17279 340322002459 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 340322002460 putative dimer interface [polypeptide binding]; other site 340322002461 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340322002462 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322002463 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322002464 dimer interface [polypeptide binding]; other site 340322002465 conserved gate region; other site 340322002466 putative PBP binding loops; other site 340322002467 ABC-ATPase subunit interface; other site 340322002468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322002469 dimer interface [polypeptide binding]; other site 340322002470 conserved gate region; other site 340322002471 putative PBP binding loops; other site 340322002472 ABC-ATPase subunit interface; other site 340322002473 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 340322002474 putative hydrophobic ligand binding site [chemical binding]; other site 340322002475 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 340322002476 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 340322002477 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322002478 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 340322002479 Walker A/P-loop; other site 340322002480 ATP binding site [chemical binding]; other site 340322002481 Q-loop/lid; other site 340322002482 ABC transporter signature motif; other site 340322002483 Walker B; other site 340322002484 D-loop; other site 340322002485 H-loop/switch region; other site 340322002486 TOBE domain; Region: TOBE_2; pfam08402 340322002487 TIGR03089 family protein; Region: TIGR03089 340322002488 Transcriptional regulator [Transcription]; Region: LytR; COG1316 340322002489 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 340322002490 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322002491 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 340322002492 Probable Catalytic site; other site 340322002493 metal-binding site 340322002494 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 340322002495 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 340322002496 active site 340322002497 Substrate binding site; other site 340322002498 Mg++ binding site; other site 340322002499 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 340322002500 putative trimer interface [polypeptide binding]; other site 340322002501 putative CoA binding site [chemical binding]; other site 340322002502 Transcription factor WhiB; Region: Whib; pfam02467 340322002503 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 340322002504 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 340322002505 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 340322002506 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 340322002507 active site 340322002508 substrate binding site [chemical binding]; other site 340322002509 metal binding site [ion binding]; metal-binding site 340322002510 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 340322002511 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 340322002512 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 340322002513 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 340322002514 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 340322002515 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 340322002516 homotetramer interface [polypeptide binding]; other site 340322002517 ligand binding site [chemical binding]; other site 340322002518 catalytic site [active] 340322002519 NAD binding site [chemical binding]; other site 340322002520 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 340322002521 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 340322002522 TMP-binding site; other site 340322002523 ATP-binding site [chemical binding]; other site 340322002524 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322002525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322002526 active site 340322002527 phosphorylation site [posttranslational modification] 340322002528 intermolecular recognition site; other site 340322002529 dimerization interface [polypeptide binding]; other site 340322002530 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 340322002531 DNA binding site [nucleotide binding] 340322002532 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322002533 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 340322002534 dimerization interface [polypeptide binding]; other site 340322002535 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 340322002536 dimer interface [polypeptide binding]; other site 340322002537 phosphorylation site [posttranslational modification] 340322002538 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 340322002539 ATP binding site [chemical binding]; other site 340322002540 Mg2+ binding site [ion binding]; other site 340322002541 G-X-G motif; other site 340322002542 lipoprotein LpqB; Provisional; Region: PRK13616 340322002543 Sporulation and spore germination; Region: Germane; pfam10646 340322002544 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 340322002545 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322002546 active site 340322002547 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 340322002548 30S subunit binding site; other site 340322002549 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 340322002550 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 340322002551 ATP binding site [chemical binding]; other site 340322002552 putative Mg++ binding site [ion binding]; other site 340322002553 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 340322002554 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 340322002555 nucleotide binding region [chemical binding]; other site 340322002556 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 340322002557 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 340322002558 Predicted GTPases [General function prediction only]; Region: COG1162 340322002559 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 340322002560 GTPase/Zn-binding domain interface [polypeptide binding]; other site 340322002561 GTP/Mg2+ binding site [chemical binding]; other site 340322002562 G4 box; other site 340322002563 G1 box; other site 340322002564 Switch I region; other site 340322002565 G2 box; other site 340322002566 G3 box; other site 340322002567 Switch II region; other site 340322002568 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 340322002569 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 340322002570 hinge; other site 340322002571 active site 340322002572 Uncharacterized conserved protein [Function unknown]; Region: COG2135 340322002573 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 340322002574 active site 340322002575 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 340322002576 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322002577 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 340322002578 DNA binding residues [nucleotide binding] 340322002579 Transcription factor WhiB; Region: Whib; pfam02467 340322002580 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 340322002581 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340322002582 ATP binding site [chemical binding]; other site 340322002583 Mg++ binding site [ion binding]; other site 340322002584 motif III; other site 340322002585 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 340322002586 nucleotide binding region [chemical binding]; other site 340322002587 ATP-binding site [chemical binding]; other site 340322002588 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 340322002589 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 340322002590 TIGR02569 family protein; Region: TIGR02569_actnb 340322002591 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 340322002592 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 340322002593 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 340322002594 Family description; Region: UvrD_C_2; pfam13538 340322002595 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 340322002596 Ion channel; Region: Ion_trans_2; pfam07885 340322002597 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 340322002598 TrkA-N domain; Region: TrkA_N; pfam02254 340322002599 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 340322002600 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 340322002601 putative NADH binding site [chemical binding]; other site 340322002602 putative active site [active] 340322002603 nudix motif; other site 340322002604 putative metal binding site [ion binding]; other site 340322002605 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 340322002606 Part of AAA domain; Region: AAA_19; pfam13245 340322002607 Family description; Region: UvrD_C_2; pfam13538 340322002608 HRDC domain; Region: HRDC; pfam00570 340322002609 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 340322002610 Uncharacterized conserved protein [Function unknown]; Region: COG5282 340322002611 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 340322002612 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 340322002613 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 340322002614 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 340322002615 hypothetical protein; Validated; Region: PRK00068 340322002616 Uncharacterized conserved protein [Function unknown]; Region: COG1615 340322002617 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 340322002618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322002619 DNA-binding site [nucleotide binding]; DNA binding site 340322002620 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 340322002621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002622 homodimer interface [polypeptide binding]; other site 340322002623 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 340322002624 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 340322002625 active site 340322002626 multimer interface [polypeptide binding]; other site 340322002627 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 340322002628 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 340322002629 predicted active site [active] 340322002630 catalytic triad [active] 340322002631 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 340322002632 substrate binding sites [chemical binding]; other site 340322002633 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 340322002634 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 340322002635 active site 340322002636 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 340322002637 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 340322002638 active site 340322002639 peptide chain release factor 2; Validated; Region: prfB; PRK00578 340322002640 This domain is found in peptide chain release factors; Region: PCRF; smart00937 340322002641 RF-1 domain; Region: RF-1; pfam00472 340322002642 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 340322002643 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322002644 Walker A/P-loop; other site 340322002645 ATP binding site [chemical binding]; other site 340322002646 Q-loop/lid; other site 340322002647 ABC transporter signature motif; other site 340322002648 Walker B; other site 340322002649 D-loop; other site 340322002650 H-loop/switch region; other site 340322002651 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 340322002652 FtsX-like permease family; Region: FtsX; pfam02687 340322002653 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 340322002654 SmpB-tmRNA interface; other site 340322002655 Uncharacterized conserved protein [Function unknown]; Region: COG3189 340322002656 cytidine deaminase; Validated; Region: PRK08298 340322002657 active site 340322002658 Zn binding site [ion binding]; other site 340322002659 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322002660 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322002661 dimer interface [polypeptide binding]; other site 340322002662 conserved gate region; other site 340322002663 putative PBP binding loops; other site 340322002664 ABC-ATPase subunit interface; other site 340322002665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322002666 dimer interface [polypeptide binding]; other site 340322002667 conserved gate region; other site 340322002668 putative PBP binding loops; other site 340322002669 ABC-ATPase subunit interface; other site 340322002670 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 340322002671 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 340322002672 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322002673 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 340322002674 Walker A/P-loop; other site 340322002675 ATP binding site [chemical binding]; other site 340322002676 Q-loop/lid; other site 340322002677 ABC transporter signature motif; other site 340322002678 Walker B; other site 340322002679 D-loop; other site 340322002680 H-loop/switch region; other site 340322002681 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 340322002682 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 340322002683 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 340322002684 cofactor binding site; other site 340322002685 DNA binding site [nucleotide binding] 340322002686 substrate interaction site [chemical binding]; other site 340322002687 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 340322002688 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 340322002689 FAD binding pocket [chemical binding]; other site 340322002690 FAD binding motif [chemical binding]; other site 340322002691 phosphate binding motif [ion binding]; other site 340322002692 NAD binding pocket [chemical binding]; other site 340322002693 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 340322002694 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002695 siderophore binding site; other site 340322002696 Vitamin K epoxide reductase family in bacteria; Region: VKOR_5; cd12922 340322002697 putative active site [active] 340322002698 redox center [active] 340322002699 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 340322002700 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 340322002701 intersubunit interface [polypeptide binding]; other site 340322002702 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 340322002703 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 340322002704 ABC-ATPase subunit interface; other site 340322002705 dimer interface [polypeptide binding]; other site 340322002706 putative PBP binding regions; other site 340322002707 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 340322002708 ABC-ATPase subunit interface; other site 340322002709 dimer interface [polypeptide binding]; other site 340322002710 putative PBP binding regions; other site 340322002711 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 340322002712 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322002713 Walker A/P-loop; other site 340322002714 ATP binding site [chemical binding]; other site 340322002715 Q-loop/lid; other site 340322002716 ABC transporter signature motif; other site 340322002717 Walker B; other site 340322002718 D-loop; other site 340322002719 H-loop/switch region; other site 340322002720 aminotransferase; Validated; Region: PRK07777 340322002721 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 340322002722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002723 homodimer interface [polypeptide binding]; other site 340322002724 catalytic residue [active] 340322002725 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 340322002726 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 340322002727 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322002728 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 340322002729 ATP binding site [chemical binding]; other site 340322002730 putative Mg++ binding site [ion binding]; other site 340322002731 helicase superfamily c-terminal domain; Region: HELICc; smart00490 340322002732 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 340322002733 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 340322002734 DNA-binding site [nucleotide binding]; DNA binding site 340322002735 RNA-binding motif; other site 340322002736 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 340322002737 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 340322002738 substrate-cofactor binding pocket; other site 340322002739 homodimer interface [polypeptide binding]; other site 340322002740 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 340322002741 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 340322002742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002743 catalytic residue [active] 340322002744 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 340322002745 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340322002746 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 340322002747 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 340322002748 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 340322002749 phosphoserine aminotransferase, putative; Region: serC_3; TIGR01366 340322002750 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322002751 catalytic residue [active] 340322002752 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 340322002753 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 340322002754 dimer interface [polypeptide binding]; other site 340322002755 active site 340322002756 citrylCoA binding site [chemical binding]; other site 340322002757 NADH binding [chemical binding]; other site 340322002758 cationic pore residues; other site 340322002759 oxalacetate/citrate binding site [chemical binding]; other site 340322002760 coenzyme A binding site [chemical binding]; other site 340322002761 catalytic triad [active] 340322002762 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 340322002763 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 340322002764 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 340322002765 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 340322002766 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 340322002767 Predicted membrane protein [Function unknown]; Region: COG3162 340322002768 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 340322002769 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 340322002770 Na binding site [ion binding]; other site 340322002771 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 340322002772 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 340322002773 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 340322002774 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 340322002775 phosphate binding site [ion binding]; other site 340322002776 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 340322002777 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 340322002778 active site 2 [active] 340322002779 active site 1 [active] 340322002780 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 340322002781 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 340322002782 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 340322002783 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 340322002784 putative NAD(P) binding site [chemical binding]; other site 340322002785 active site 340322002786 "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 340322002787 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 340322002788 active site 340322002789 Septum formation; Region: Septum_form; pfam13845 340322002790 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 340322002791 hypothetical protein; Validated; Region: PRK07581 340322002792 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 340322002793 catalytic residues [active] 340322002794 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 340322002795 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 340322002796 folate binding site [chemical binding]; other site 340322002797 NADP+ binding site [chemical binding]; other site 340322002798 thymidylate synthase; Reviewed; Region: thyA; PRK01827 340322002799 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 340322002800 dimerization interface [polypeptide binding]; other site 340322002801 active site 340322002802 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 340322002803 active site 340322002804 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 340322002805 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 340322002806 ATP binding site [chemical binding]; other site 340322002807 putative Mg++ binding site [ion binding]; other site 340322002808 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 340322002809 nucleotide binding region [chemical binding]; other site 340322002810 ATP-binding site [chemical binding]; other site 340322002811 DEAD/H associated; Region: DEAD_assoc; pfam08494 340322002812 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 340322002813 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 340322002814 putative DNA binding site [nucleotide binding]; other site 340322002815 catalytic residue [active] 340322002816 putative H2TH interface [polypeptide binding]; other site 340322002817 putative catalytic residues [active] 340322002818 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 340322002819 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 340322002820 Predicted membrane protein [Function unknown]; Region: COG3304 340322002821 Domain of unknown function (DUF307); Region: DUF307; pfam03733 340322002822 Domain of unknown function (DUF307); Region: DUF307; pfam03733 340322002823 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340322002824 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 340322002825 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 340322002826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002827 putative substrate translocation pore; other site 340322002828 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 340322002829 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 340322002830 active site 340322002831 dimer interface [polypeptide binding]; other site 340322002832 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 340322002833 dimer interface [polypeptide binding]; other site 340322002834 active site 340322002835 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 340322002836 active site 340322002837 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 340322002838 Part of AAA domain; Region: AAA_19; pfam13245 340322002839 Family description; Region: UvrD_C_2; pfam13538 340322002840 FtsX-like permease family; Region: FtsX; pfam02687 340322002841 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322002842 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 340322002843 Walker A/P-loop; other site 340322002844 ATP binding site [chemical binding]; other site 340322002845 Q-loop/lid; other site 340322002846 ABC transporter signature motif; other site 340322002847 Walker B; other site 340322002848 D-loop; other site 340322002849 H-loop/switch region; other site 340322002850 Predicted transcriptional regulators [Transcription]; Region: COG1695 340322002851 Transcriptional regulator PadR-like family; Region: PadR; cl17335 340322002852 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 340322002853 Peptidase family M23; Region: Peptidase_M23; pfam01551 340322002854 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 340322002855 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 340322002856 active site 340322002857 substrate binding site [chemical binding]; other site 340322002858 cosubstrate binding site; other site 340322002859 catalytic site [active] 340322002860 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 340322002861 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 340322002862 purine monophosphate binding site [chemical binding]; other site 340322002863 dimer interface [polypeptide binding]; other site 340322002864 putative catalytic residues [active] 340322002865 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 340322002866 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 340322002867 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 340322002868 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322002869 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322002870 30S ribosomal protein S18; Provisional; Region: PRK13401 340322002871 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 340322002872 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 340322002873 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 340322002874 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 340322002875 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 340322002876 Sulfate transporter family; Region: Sulfate_transp; pfam00916 340322002877 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 340322002878 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 340322002879 dimerization interface [polypeptide binding]; other site 340322002880 putative DNA binding site [nucleotide binding]; other site 340322002881 putative Zn2+ binding site [ion binding]; other site 340322002882 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 340322002883 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 340322002884 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322002885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322002886 active site 340322002887 phosphorylation site [posttranslational modification] 340322002888 intermolecular recognition site; other site 340322002889 dimerization interface [polypeptide binding]; other site 340322002890 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 340322002891 DNA binding site [nucleotide binding] 340322002892 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 340322002893 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 340322002894 dimerization interface [polypeptide binding]; other site 340322002895 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 340322002896 dimer interface [polypeptide binding]; other site 340322002897 phosphorylation site [posttranslational modification] 340322002898 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 340322002899 ATP binding site [chemical binding]; other site 340322002900 Mg2+ binding site [ion binding]; other site 340322002901 G-X-G motif; other site 340322002902 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 340322002903 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 340322002904 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 340322002905 protein binding site [polypeptide binding]; other site 340322002906 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 340322002907 MPT binding site; other site 340322002908 trimer interface [polypeptide binding]; other site 340322002909 ADDz for ATRX, Dnmt3 and Dnmt3l PHD-like zinc finger domain; Region: ADDz; cl17040 340322002910 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 340322002911 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 340322002912 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 340322002913 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 340322002914 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 340322002915 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 340322002916 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 340322002917 active site 340322002918 tetramer interface; other site 340322002919 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 340322002920 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 340322002921 dimer interface [polypeptide binding]; other site 340322002922 putative functional site; other site 340322002923 putative MPT binding site; other site 340322002924 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 340322002925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 340322002926 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 340322002927 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002928 putative substrate translocation pore; other site 340322002929 Predicted membrane protein [Function unknown]; Region: COG2259 340322002930 Predicted integral membrane protein [Function unknown]; Region: COG5660 340322002931 Putative zinc-finger; Region: zf-HC2; pfam13490 340322002932 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like; cd11354 340322002933 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 340322002934 active site 340322002935 catalytic site [active] 340322002936 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 340322002937 Predicted methyltransferases [General function prediction only]; Region: COG0313 340322002938 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 340322002939 putative SAM binding site [chemical binding]; other site 340322002940 putative homodimer interface [polypeptide binding]; other site 340322002941 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 340322002942 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 340322002943 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 340322002944 active site 340322002945 HIGH motif; other site 340322002946 KMSKS motif; other site 340322002947 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 340322002948 tRNA binding surface [nucleotide binding]; other site 340322002949 anticodon binding site; other site 340322002950 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 340322002951 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 340322002952 ATP binding site [chemical binding]; other site 340322002953 putative Mg++ binding site [ion binding]; other site 340322002954 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 340322002955 nucleotide binding region [chemical binding]; other site 340322002956 ATP-binding site [chemical binding]; other site 340322002957 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 340322002958 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 340322002959 active site 340322002960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 340322002961 Domain of unknown function (DUF348); Region: DUF348; pfam03990 340322002962 Domain of unknown function (DUF348); Region: DUF348; pfam03990 340322002963 G5 domain; Region: G5; pfam07501 340322002964 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 340322002965 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 340322002966 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 340322002967 S-adenosylmethionine binding site [chemical binding]; other site 340322002968 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 340322002969 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 340322002970 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322002971 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322002972 ABC transporter; Region: ABC_tran_2; pfam12848 340322002973 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322002974 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 340322002975 dimer interface [polypeptide binding]; other site 340322002976 pyridoxal binding site [chemical binding]; other site 340322002977 ATP binding site [chemical binding]; other site 340322002978 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 340322002979 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 340322002980 catalytic residues [active] 340322002981 Uncharacterized conserved protein [Function unknown]; Region: COG1359 340322002982 Uncharacterized conserved protein [Function unknown]; Region: COG1359 340322002983 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 340322002984 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 340322002985 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 340322002986 active site 340322002987 motif I; other site 340322002988 motif II; other site 340322002989 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 340322002990 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 340322002991 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 340322002992 substrate binding site [chemical binding]; other site 340322002993 oxyanion hole (OAH) forming residues; other site 340322002994 trimer interface [polypeptide binding]; other site 340322002995 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 340322002996 Predicted membrane protein [General function prediction only]; Region: COG4194 340322002997 Predicted esterase [General function prediction only]; Region: COG0627 340322002998 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322002999 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322003000 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 340322003001 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 340322003002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 340322003003 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 340322003004 active site 340322003005 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 340322003006 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 340322003007 G1 box; other site 340322003008 putative GEF interaction site [polypeptide binding]; other site 340322003009 GTP/Mg2+ binding site [chemical binding]; other site 340322003010 Switch I region; other site 340322003011 G2 box; other site 340322003012 G3 box; other site 340322003013 Switch II region; other site 340322003014 G4 box; other site 340322003015 G5 box; other site 340322003016 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 340322003017 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 340322003018 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 340322003019 putative ligand binding site [chemical binding]; other site 340322003020 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 340322003021 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 340322003022 TM-ABC transporter signature motif; other site 340322003023 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 340322003024 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 340322003025 TM-ABC transporter signature motif; other site 340322003026 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 340322003027 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 340322003028 Walker A/P-loop; other site 340322003029 ATP binding site [chemical binding]; other site 340322003030 Q-loop/lid; other site 340322003031 ABC transporter signature motif; other site 340322003032 Walker B; other site 340322003033 D-loop; other site 340322003034 H-loop/switch region; other site 340322003035 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 340322003036 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 340322003037 Walker A/P-loop; other site 340322003038 ATP binding site [chemical binding]; other site 340322003039 Q-loop/lid; other site 340322003040 ABC transporter signature motif; other site 340322003041 Walker B; other site 340322003042 D-loop; other site 340322003043 H-loop/switch region; other site 340322003044 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 340322003045 putative active site [active] 340322003046 catalytic residue [active] 340322003047 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 340322003048 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 340322003049 FMN binding site [chemical binding]; other site 340322003050 substrate binding site [chemical binding]; other site 340322003051 putative catalytic residue [active] 340322003052 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 340322003053 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 340322003054 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 340322003055 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 340322003056 putative active site [active] 340322003057 catalytic residue [active] 340322003058 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 340322003059 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 340322003060 5S rRNA interface [nucleotide binding]; other site 340322003061 CTC domain interface [polypeptide binding]; other site 340322003062 L16 interface [polypeptide binding]; other site 340322003063 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 340322003064 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340322003065 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 340322003066 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 340322003067 active site 340322003068 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 340322003069 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 340322003070 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322003071 active site 340322003072 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 340322003073 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 340322003074 Substrate binding site; other site 340322003075 Mg++ binding site; other site 340322003076 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 340322003077 active site 340322003078 substrate binding site [chemical binding]; other site 340322003079 CoA binding site [chemical binding]; other site 340322003080 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322003081 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 340322003082 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 340322003083 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 340322003084 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322003085 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 340322003086 Walker A/P-loop; other site 340322003087 ATP binding site [chemical binding]; other site 340322003088 Q-loop/lid; other site 340322003089 ABC transporter signature motif; other site 340322003090 Walker B; other site 340322003091 D-loop; other site 340322003092 H-loop/switch region; other site 340322003093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 340322003094 Histidine kinase; Region: HisKA_3; pfam07730 340322003095 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322003096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322003097 active site 340322003098 phosphorylation site [posttranslational modification] 340322003099 intermolecular recognition site; other site 340322003100 dimerization interface [polypeptide binding]; other site 340322003101 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 340322003102 DNA binding residues [nucleotide binding] 340322003103 dimerization interface [polypeptide binding]; other site 340322003104 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 340322003105 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003106 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322003107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003108 ABC transporter signature motif; other site 340322003109 Walker B; other site 340322003110 D-loop; other site 340322003111 H-loop/switch region; other site 340322003112 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003113 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322003114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003115 Walker A/P-loop; other site 340322003116 ATP binding site [chemical binding]; other site 340322003117 Q-loop/lid; other site 340322003118 ABC transporter signature motif; other site 340322003119 Walker B; other site 340322003120 D-loop; other site 340322003121 H-loop/switch region; other site 340322003122 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 340322003123 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 340322003124 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 340322003125 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322003126 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322003127 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 340322003128 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 340322003129 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 340322003130 ATP binding site [chemical binding]; other site 340322003131 putative Mg++ binding site [ion binding]; other site 340322003132 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 340322003133 nucleotide binding region [chemical binding]; other site 340322003134 ATP-binding site [chemical binding]; other site 340322003135 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 340322003136 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003137 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322003138 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 340322003139 Walker A/P-loop; other site 340322003140 ATP binding site [chemical binding]; other site 340322003141 Q-loop/lid; other site 340322003142 ABC transporter signature motif; other site 340322003143 Walker B; other site 340322003144 D-loop; other site 340322003145 H-loop/switch region; other site 340322003146 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003147 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322003148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003149 Walker A/P-loop; other site 340322003150 ATP binding site [chemical binding]; other site 340322003151 Q-loop/lid; other site 340322003152 ABC transporter signature motif; other site 340322003153 Walker B; other site 340322003154 D-loop; other site 340322003155 H-loop/switch region; other site 340322003156 Uncharacterized conserved protein [Function unknown]; Region: COG2898 340322003157 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 340322003158 Predicted esterase [General function prediction only]; Region: COG0627 340322003159 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 340322003160 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 340322003161 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 340322003162 homodimer interface [polypeptide binding]; other site 340322003163 metal binding site [ion binding]; metal-binding site 340322003164 Alpha helical Porin B; Region: PorB; pfam11565 340322003165 Alpha helical Porin B; Region: PorB; pfam11565 340322003166 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 340322003167 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 340322003168 N-acetyl-D-glucosamine binding site [chemical binding]; other site 340322003169 enolase; Provisional; Region: eno; PRK00077 340322003170 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 340322003171 dimer interface [polypeptide binding]; other site 340322003172 metal binding site [ion binding]; metal-binding site 340322003173 substrate binding pocket [chemical binding]; other site 340322003174 Septum formation initiator; Region: DivIC; pfam04977 340322003175 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 340322003176 Uncharacterized conserved protein [Function unknown]; Region: COG1507 340322003177 exopolyphosphatase; Region: exo_poly_only; TIGR03706 340322003178 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 340322003179 Predicted transcriptional regulator [Transcription]; Region: COG1395 340322003180 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 340322003181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 340322003182 Predicted membrane protein [Function unknown]; Region: COG4760 340322003183 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 340322003184 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 340322003185 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 340322003186 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 340322003187 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 340322003188 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 340322003189 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 340322003190 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14828 340322003191 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 340322003192 catalytic residue [active] 340322003193 putative FPP diphosphate binding site; other site 340322003194 putative FPP binding hydrophobic cleft; other site 340322003195 dimer interface [polypeptide binding]; other site 340322003196 putative IPP diphosphate binding site; other site 340322003197 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 340322003198 pantothenate kinase; Provisional; Region: PRK05439 340322003199 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 340322003200 ATP-binding site [chemical binding]; other site 340322003201 CoA-binding site [chemical binding]; other site 340322003202 Mg2+-binding site [ion binding]; other site 340322003203 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 340322003204 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 340322003205 dimer interface [polypeptide binding]; other site 340322003206 active site 340322003207 glycine-pyridoxal phosphate binding site [chemical binding]; other site 340322003208 folate binding site [chemical binding]; other site 340322003209 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 340322003210 Glutamine amidotransferase class-I; Region: GATase; pfam00117 340322003211 glutamine binding [chemical binding]; other site 340322003212 catalytic triad [active] 340322003213 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 340322003214 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 340322003215 chorismate binding enzyme; Region: Chorismate_bind; cl10555 340322003216 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 340322003217 substrate-cofactor binding pocket; other site 340322003218 homodimer interface [polypeptide binding]; other site 340322003219 Aminotransferase class IV; Region: Aminotran_4; pfam01063 340322003220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322003221 catalytic residue [active] 340322003222 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 340322003223 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 340322003224 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322003225 Coenzyme A binding pocket [chemical binding]; other site 340322003226 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 340322003227 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 340322003228 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 340322003229 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 340322003230 putative active site [active] 340322003231 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 340322003232 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322003233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322003234 DNA-binding site [nucleotide binding]; DNA binding site 340322003235 FCD domain; Region: FCD; pfam07729 340322003236 fumarate hydratase; Reviewed; Region: fumC; PRK00485 340322003237 Class II fumarases; Region: Fumarase_classII; cd01362 340322003238 active site 340322003239 tetramer interface [polypeptide binding]; other site 340322003240 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 340322003241 Predicted flavoprotein [General function prediction only]; Region: COG0431 340322003242 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 340322003243 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 340322003244 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 340322003245 putative active site [active] 340322003246 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 340322003247 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 340322003248 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003249 putative substrate translocation pore; other site 340322003250 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322003251 MarR family; Region: MarR_2; pfam12802 340322003252 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 340322003253 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 340322003254 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 340322003255 generic binding surface II; other site 340322003256 generic binding surface I; other site 340322003257 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 340322003258 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 340322003259 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 340322003260 Membrane protein of unknown function; Region: DUF360; pfam04020 340322003261 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 340322003262 Domain of unknown function DUF20; Region: UPF0118; pfam01594 340322003263 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 340322003264 Na2 binding site [ion binding]; other site 340322003265 putative substrate binding site 1 [chemical binding]; other site 340322003266 Na binding site 1 [ion binding]; other site 340322003267 putative substrate binding site 2 [chemical binding]; other site 340322003268 Putative esterase; Region: Esterase; pfam00756 340322003269 GTP-binding protein YchF; Reviewed; Region: PRK09601 340322003270 YchF GTPase; Region: YchF; cd01900 340322003271 G1 box; other site 340322003272 GTP/Mg2+ binding site [chemical binding]; other site 340322003273 Switch I region; other site 340322003274 G2 box; other site 340322003275 Switch II region; other site 340322003276 G3 box; other site 340322003277 G4 box; other site 340322003278 G5 box; other site 340322003279 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 340322003280 short chain dehydrogenase; Validated; Region: PRK06182 340322003281 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 340322003282 NADP binding site [chemical binding]; other site 340322003283 active site 340322003284 steroid binding site; other site 340322003285 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322003286 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322003287 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322003288 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322003289 MASE1; Region: MASE1; pfam05231 340322003290 PAS domain S-box; Region: sensory_box; TIGR00229 340322003291 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 340322003292 putative active site [active] 340322003293 heme pocket [chemical binding]; other site 340322003294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 340322003295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 340322003296 metal binding site [ion binding]; metal-binding site 340322003297 active site 340322003298 I-site; other site 340322003299 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 340322003300 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 340322003301 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 340322003302 DXD motif; other site 340322003303 NNMT/PNMT/TEMT family; Region: NNMT_PNMT_TEMT; pfam01234 340322003304 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 340322003305 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 340322003306 Domain of unknown function DUF108; Region: DUF108; pfam01958 340322003307 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 340322003308 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340322003309 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 340322003310 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 340322003311 nudix motif; other site 340322003312 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 340322003313 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 340322003314 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 340322003315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003316 putative substrate translocation pore; other site 340322003317 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322003318 MarR family; Region: MarR_2; pfam12802 340322003319 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 340322003320 Protein of unknown function, DUF488; Region: DUF488; pfam04343 340322003321 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 340322003322 NADH(P)-binding; Region: NAD_binding_10; pfam13460 340322003323 NAD(P) binding site [chemical binding]; other site 340322003324 putative active site [active] 340322003325 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 340322003326 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 340322003327 Sulfate transporter family; Region: Sulfate_transp; pfam00916 340322003328 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 340322003329 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 340322003330 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 340322003331 metal ion-dependent adhesion site (MIDAS); other site 340322003332 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 340322003333 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 340322003334 catalytic core [active] 340322003335 conserved hypothetical protein; Region: TIGR03843 340322003336 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 340322003337 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 340322003338 tetramer interface [polypeptide binding]; other site 340322003339 active site 340322003340 Mg2+/Mn2+ binding site [ion binding]; other site 340322003341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003342 Walker A/P-loop; other site 340322003343 ATP binding site [chemical binding]; other site 340322003344 ABC transporter; Region: ABC_tran; pfam00005 340322003345 Q-loop/lid; other site 340322003346 ABC transporter signature motif; other site 340322003347 Walker B; other site 340322003348 D-loop; other site 340322003349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003350 H-loop/switch region; other site 340322003351 ABC transporter; Region: ABC_tran_2; pfam12848 340322003352 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 340322003353 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322003354 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 340322003355 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 340322003356 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 340322003357 PhnA protein; Region: PhnA; pfam03831 340322003358 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 340322003359 putative DNA binding site [nucleotide binding]; other site 340322003360 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322003361 putative Zn2+ binding site [ion binding]; other site 340322003362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003363 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322003364 putative substrate translocation pore; other site 340322003365 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 340322003366 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 340322003367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322003368 catalytic residue [active] 340322003369 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06543 340322003370 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 340322003371 dimerization interface [polypeptide binding]; other site 340322003372 active site 340322003373 quinolinate synthetase; Provisional; Region: PRK09375 340322003374 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 340322003375 nudix motif; other site 340322003376 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 340322003377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 340322003378 Protein of unknown function, DUF606; Region: DUF606; pfam04657 340322003379 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 340322003380 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322003381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 340322003382 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 340322003383 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 340322003384 dimer interface [polypeptide binding]; other site 340322003385 benzoate transport; Region: 2A0115; TIGR00895 340322003386 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003387 putative substrate translocation pore; other site 340322003388 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003389 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 340322003390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 340322003391 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 340322003392 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322003393 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 340322003394 Walker A/P-loop; other site 340322003395 ATP binding site [chemical binding]; other site 340322003396 Q-loop/lid; other site 340322003397 ABC transporter signature motif; other site 340322003398 Walker B; other site 340322003399 D-loop; other site 340322003400 H-loop/switch region; other site 340322003401 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 340322003402 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 340322003403 Walker A/P-loop; other site 340322003404 ATP binding site [chemical binding]; other site 340322003405 Q-loop/lid; other site 340322003406 ABC transporter signature motif; other site 340322003407 Walker B; other site 340322003408 D-loop; other site 340322003409 H-loop/switch region; other site 340322003410 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 340322003411 hypothetical protein; Provisional; Region: PRK06547 340322003412 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 340322003413 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 340322003414 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 340322003415 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 340322003416 Predicted integral membrane protein [Function unknown]; Region: COG5522 340322003417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003418 Walker A/P-loop; other site 340322003419 ATP binding site [chemical binding]; other site 340322003420 Q-loop/lid; other site 340322003421 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 340322003422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003423 ABC transporter signature motif; other site 340322003424 Walker B; other site 340322003425 D-loop; other site 340322003426 H-loop/switch region; other site 340322003427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003428 Walker A/P-loop; other site 340322003429 ATP binding site [chemical binding]; other site 340322003430 Q-loop/lid; other site 340322003431 ABC transporter signature motif; other site 340322003432 Walker B; other site 340322003433 D-loop; other site 340322003434 H-loop/switch region; other site 340322003435 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 340322003436 dimer interface [polypeptide binding]; other site 340322003437 catalytic triad [active] 340322003438 peroxidatic and resolving cysteines [active] 340322003439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 340322003440 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 340322003441 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 340322003442 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 340322003443 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 340322003444 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 340322003445 nudix motif; other site 340322003446 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 340322003447 Trypsin; Region: Trypsin; pfam00089 340322003448 active site 340322003449 substrate binding sites [chemical binding]; other site 340322003450 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 340322003451 ArsC family; Region: ArsC; pfam03960 340322003452 catalytic residues [active] 340322003453 Uncharacterized membrane protein [Function unknown]; Region: COG3949 340322003454 Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]; Region: COG2306 340322003455 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 340322003456 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 340322003457 G1 box; other site 340322003458 GTP/Mg2+ binding site [chemical binding]; other site 340322003459 G2 box; other site 340322003460 Switch I region; other site 340322003461 G3 box; other site 340322003462 Switch II region; other site 340322003463 G4 box; other site 340322003464 G5 box; other site 340322003465 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 340322003466 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 340322003467 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 340322003468 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 340322003469 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 340322003470 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 340322003471 Ferredoxin [Energy production and conversion]; Region: COG1146 340322003472 4Fe-4S binding domain; Region: Fer4; pfam00037 340322003473 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 340322003474 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 340322003475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322003476 homodimer interface [polypeptide binding]; other site 340322003477 catalytic residue [active] 340322003478 Predicted membrane protein [Function unknown]; Region: COG2246 340322003479 GtrA-like protein; Region: GtrA; pfam04138 340322003480 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 340322003481 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 340322003482 active site 340322003483 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 340322003484 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 340322003485 putative trimer interface [polypeptide binding]; other site 340322003486 putative CoA binding site [chemical binding]; other site 340322003487 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 340322003488 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 340322003489 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 340322003490 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 340322003491 putative trimer interface [polypeptide binding]; other site 340322003492 putative CoA binding site [chemical binding]; other site 340322003493 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 340322003494 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 340322003495 metal binding site [ion binding]; metal-binding site 340322003496 putative dimer interface [polypeptide binding]; other site 340322003497 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 340322003498 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 340322003499 substrate binding pocket [chemical binding]; other site 340322003500 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 340322003501 inhibitor binding site; inhibition site 340322003502 dimer interface [polypeptide binding]; other site 340322003503 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 340322003504 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 340322003505 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 340322003506 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 340322003507 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 340322003508 S-adenosylmethionine binding site [chemical binding]; other site 340322003509 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 340322003510 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 340322003511 active site 340322003512 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 340322003513 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 340322003514 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 340322003515 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 340322003516 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 340322003517 ligand binding site; other site 340322003518 oligomer interface; other site 340322003519 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 340322003520 sulfate 1 binding site; other site 340322003521 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 340322003522 Methyltransferase domain; Region: Methyltransf_24; pfam13578 340322003523 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 340322003524 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322003525 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 340322003526 DNA binding residues [nucleotide binding] 340322003527 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 340322003528 sec-independent translocase; Provisional; Region: tatB; PRK00182 340322003529 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 340322003530 Domain of unknown function DUF59; Region: DUF59; pfam01883 340322003531 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 340322003532 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 340322003533 Predicted membrane protein [Function unknown]; Region: COG4420 340322003534 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 340322003535 MgtE intracellular N domain; Region: MgtE_N; smart00924 340322003536 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 340322003537 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 340322003538 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 340322003539 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 340322003540 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 340322003541 TPP-binding site [chemical binding]; other site 340322003542 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 340322003543 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003544 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322003545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003546 Walker A/P-loop; other site 340322003547 ATP binding site [chemical binding]; other site 340322003548 Q-loop/lid; other site 340322003549 ABC transporter signature motif; other site 340322003550 Walker B; other site 340322003551 D-loop; other site 340322003552 H-loop/switch region; other site 340322003553 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003554 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322003555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003556 Walker A/P-loop; other site 340322003557 ATP binding site [chemical binding]; other site 340322003558 Q-loop/lid; other site 340322003559 ABC transporter signature motif; other site 340322003560 Walker B; other site 340322003561 D-loop; other site 340322003562 H-loop/switch region; other site 340322003563 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 340322003564 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 340322003565 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 340322003566 shikimate binding site; other site 340322003567 NAD(P) binding site [chemical binding]; other site 340322003568 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 340322003569 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 340322003570 substrate binding pocket [chemical binding]; other site 340322003571 catalytic triad [active] 340322003572 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 340322003573 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003574 putative substrate translocation pore; other site 340322003575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322003576 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003578 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322003579 putative substrate translocation pore; other site 340322003580 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 340322003581 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 340322003582 THF binding site; other site 340322003583 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 340322003584 substrate binding site [chemical binding]; other site 340322003585 THF binding site; other site 340322003586 zinc-binding site [ion binding]; other site 340322003587 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322003588 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322003589 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 340322003590 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 340322003591 active site 340322003592 nucleophile elbow; other site 340322003593 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322003594 Condensation domain; Region: Condensation; pfam00668 340322003595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 340322003596 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 340322003597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003598 Q-loop/lid; other site 340322003599 ABC transporter signature motif; other site 340322003600 Walker B; other site 340322003601 D-loop; other site 340322003602 H-loop/switch region; other site 340322003603 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 340322003604 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322003605 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 340322003606 Walker A/P-loop; other site 340322003607 ATP binding site [chemical binding]; other site 340322003608 Q-loop/lid; other site 340322003609 ABC transporter signature motif; other site 340322003610 Walker B; other site 340322003611 D-loop; other site 340322003612 H-loop/switch region; other site 340322003613 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 340322003614 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 340322003615 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 340322003616 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 340322003617 PLD-like domain; Region: PLDc_2; pfam13091 340322003618 putative homodimer interface [polypeptide binding]; other site 340322003619 putative active site [active] 340322003620 catalytic site [active] 340322003621 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322003622 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 340322003623 ATP binding site [chemical binding]; other site 340322003624 putative Mg++ binding site [ion binding]; other site 340322003625 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 340322003626 nucleotide binding region [chemical binding]; other site 340322003627 ATP-binding site [chemical binding]; other site 340322003628 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 340322003629 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 340322003630 active site 340322003631 8-oxo-dGMP binding site [chemical binding]; other site 340322003632 nudix motif; other site 340322003633 metal binding site [ion binding]; metal-binding site 340322003634 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 340322003635 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 340322003636 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 340322003637 ATP binding site [chemical binding]; other site 340322003638 Mg++ binding site [ion binding]; other site 340322003639 motif III; other site 340322003640 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 340322003641 nucleotide binding region [chemical binding]; other site 340322003642 ATP-binding site [chemical binding]; other site 340322003643 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 340322003644 putative RNA binding site [nucleotide binding]; other site 340322003645 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322003646 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322003647 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 340322003648 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 340322003649 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 340322003650 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 340322003651 active site 340322003652 dimer interface [polypeptide binding]; other site 340322003653 metal binding site [ion binding]; metal-binding site 340322003654 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 340322003655 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 340322003656 active site 340322003657 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 340322003658 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 340322003659 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 340322003660 Na binding site [ion binding]; other site 340322003661 SNF2 Helicase protein; Region: DUF3670; pfam12419 340322003662 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 340322003663 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 340322003664 putative Mg++ binding site [ion binding]; other site 340322003665 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 340322003666 nucleotide binding region [chemical binding]; other site 340322003667 ATP-binding site [chemical binding]; other site 340322003668 Uncharacterized conserved protein [Function unknown]; Region: COG4279 340322003669 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 340322003670 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 340322003671 active site 340322003672 metal binding site [ion binding]; metal-binding site 340322003673 DNA binding site [nucleotide binding] 340322003674 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 340322003675 AAA domain; Region: AAA_27; pfam13514 340322003676 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 340322003677 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322003678 MarR family; Region: MarR_2; pfam12802 340322003679 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 340322003680 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 340322003681 ligand binding site [chemical binding]; other site 340322003682 flexible hinge region; other site 340322003683 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 340322003684 non-specific DNA interactions [nucleotide binding]; other site 340322003685 DNA binding site [nucleotide binding] 340322003686 sequence specific DNA binding site [nucleotide binding]; other site 340322003687 putative cAMP binding site [chemical binding]; other site 340322003688 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 340322003689 metal-binding site [ion binding] 340322003690 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 340322003691 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322003692 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 340322003693 motif II; other site 340322003694 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 340322003695 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340322003696 synthetase active site [active] 340322003697 NTP binding site [chemical binding]; other site 340322003698 metal binding site [ion binding]; metal-binding site 340322003699 TAP-like protein; Region: Abhydrolase_4; pfam08386 340322003700 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 340322003701 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 340322003702 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 340322003703 active site 340322003704 HIGH motif; other site 340322003705 KMSK motif region; other site 340322003706 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340322003707 tRNA binding surface [nucleotide binding]; other site 340322003708 anticodon binding site; other site 340322003709 diaminopimelate decarboxylase; Region: lysA; TIGR01048 340322003710 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 340322003711 active site 340322003712 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322003713 substrate binding site [chemical binding]; other site 340322003714 catalytic residues [active] 340322003715 dimer interface [polypeptide binding]; other site 340322003716 homoserine dehydrogenase; Provisional; Region: PRK06349 340322003717 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 340322003718 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 340322003719 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 340322003720 homoserine kinase; Provisional; Region: PRK01212 340322003721 Predicted transcriptional regulator [Transcription]; Region: COG2345 340322003722 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 340322003723 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 340322003724 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 340322003725 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 340322003726 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 340322003727 [4Fe-4S] binding site [ion binding]; other site 340322003728 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 340322003729 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 340322003730 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 340322003731 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 340322003732 molybdopterin cofactor binding site; other site 340322003733 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 340322003734 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 340322003735 MPT binding site; other site 340322003736 trimer interface [polypeptide binding]; other site 340322003737 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 340322003738 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 340322003739 active site 340322003740 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 340322003741 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322003742 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322003743 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 340322003744 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322003745 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322003746 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 340322003747 Transporter associated domain; Region: CorC_HlyC; pfam03471 340322003748 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 340322003749 GTP binding site; other site 340322003750 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 340322003751 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 340322003752 dimer interface [polypeptide binding]; other site 340322003753 putative functional site; other site 340322003754 putative MPT binding site; other site 340322003755 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 340322003756 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 340322003757 FeS/SAM binding site; other site 340322003758 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 340322003759 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05620 340322003760 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 340322003761 dimer interface [polypeptide binding]; other site 340322003762 acyl-activating enzyme (AAE) consensus motif; other site 340322003763 putative active site [active] 340322003764 AMP binding site [chemical binding]; other site 340322003765 putative CoA binding site [chemical binding]; other site 340322003766 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 340322003767 transcription termination factor Rho; Provisional; Region: PRK12608 340322003768 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 340322003769 RNA binding site [nucleotide binding]; other site 340322003770 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 340322003771 multimer interface [polypeptide binding]; other site 340322003772 Walker A motif; other site 340322003773 ATP binding site [chemical binding]; other site 340322003774 Walker B motif; other site 340322003775 peptide chain release factor 1; Validated; Region: prfA; PRK00591 340322003776 This domain is found in peptide chain release factors; Region: PCRF; smart00937 340322003777 RF-1 domain; Region: RF-1; pfam00472 340322003778 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 340322003779 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 340322003780 S-adenosylmethionine binding site [chemical binding]; other site 340322003781 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 340322003782 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 340322003783 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 340322003784 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 340322003785 Mg++ binding site [ion binding]; other site 340322003786 putative catalytic motif [active] 340322003787 substrate binding site [chemical binding]; other site 340322003788 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 340322003789 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 340322003790 F0F1 ATP synthase subunit C; Validated; Region: PRK07874 340322003791 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 340322003792 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 340322003793 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 340322003794 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 340322003795 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 340322003796 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 340322003797 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 340322003798 beta subunit interaction interface [polypeptide binding]; other site 340322003799 Walker A motif; other site 340322003800 ATP binding site [chemical binding]; other site 340322003801 Walker B motif; other site 340322003802 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340322003803 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 340322003804 core domain interface [polypeptide binding]; other site 340322003805 delta subunit interface [polypeptide binding]; other site 340322003806 epsilon subunit interface [polypeptide binding]; other site 340322003807 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 340322003808 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 340322003809 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 340322003810 alpha subunit interaction interface [polypeptide binding]; other site 340322003811 Walker A motif; other site 340322003812 ATP binding site [chemical binding]; other site 340322003813 Walker B motif; other site 340322003814 inhibitor binding site; inhibition site 340322003815 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340322003816 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 340322003817 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 340322003818 gamma subunit interface [polypeptide binding]; other site 340322003819 epsilon subunit interface [polypeptide binding]; other site 340322003820 LBP interface [polypeptide binding]; other site 340322003821 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 340322003822 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 340322003823 hypothetical protein; Provisional; Region: PRK03298 340322003824 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 340322003825 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340322003826 dimer interface [polypeptide binding]; other site 340322003827 substrate binding site [chemical binding]; other site 340322003828 metal binding site [ion binding]; metal-binding site 340322003829 Uncharacterized conserved protein [Function unknown]; Region: COG0011 340322003830 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 340322003831 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 340322003832 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 340322003833 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 340322003834 dimer interface [polypeptide binding]; other site 340322003835 active site 340322003836 non-prolyl cis peptide bond; other site 340322003837 insertion regions; other site 340322003838 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 340322003839 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322003840 dimer interface [polypeptide binding]; other site 340322003841 conserved gate region; other site 340322003842 putative PBP binding loops; other site 340322003843 ABC-ATPase subunit interface; other site 340322003844 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 340322003845 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 340322003846 Walker A/P-loop; other site 340322003847 ATP binding site [chemical binding]; other site 340322003848 Q-loop/lid; other site 340322003849 ABC transporter signature motif; other site 340322003850 Walker B; other site 340322003851 D-loop; other site 340322003852 H-loop/switch region; other site 340322003853 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 340322003854 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 340322003855 substrate binding pocket [chemical binding]; other site 340322003856 membrane-bound complex binding site; other site 340322003857 hinge residues; other site 340322003858 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 340322003859 glycogen branching enzyme; Provisional; Region: PRK05402 340322003860 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 340322003861 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 340322003862 active site 340322003863 catalytic site [active] 340322003864 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 340322003865 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 340322003866 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 340322003867 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 340322003868 active site 340322003869 catalytic site [active] 340322003870 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 340322003871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322003872 Walker A/P-loop; other site 340322003873 ATP binding site [chemical binding]; other site 340322003874 Q-loop/lid; other site 340322003875 ABC transporter signature motif; other site 340322003876 Walker B; other site 340322003877 D-loop; other site 340322003878 H-loop/switch region; other site 340322003879 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 340322003880 Ligand binding site [chemical binding]; other site 340322003881 Electron transfer flavoprotein domain; Region: ETF; pfam01012 340322003882 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 340322003883 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 340322003884 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 340322003885 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 340322003886 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 340322003887 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322003888 catalytic residue [active] 340322003889 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 340322003890 HipA N-terminal domain; Region: couple_hipA; TIGR03071 340322003891 HipA-like N-terminal domain; Region: HipA_N; pfam07805 340322003892 HipA-like C-terminal domain; Region: HipA_C; pfam07804 340322003893 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 340322003894 salt bridge; other site 340322003895 non-specific DNA binding site [nucleotide binding]; other site 340322003896 sequence-specific DNA binding site [nucleotide binding]; other site 340322003897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322003898 Coenzyme A binding pocket [chemical binding]; other site 340322003899 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 340322003900 S-adenosylmethionine binding site [chemical binding]; other site 340322003901 AAA ATPase domain; Region: AAA_16; pfam13191 340322003902 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 340322003903 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 340322003904 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 340322003905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003906 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003907 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 340322003908 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 340322003909 active site 340322003910 catalytic site [active] 340322003911 substrate binding site [chemical binding]; other site 340322003912 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 340322003913 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 340322003914 nucleotide binding pocket [chemical binding]; other site 340322003915 K-X-D-G motif; other site 340322003916 catalytic site [active] 340322003917 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 340322003918 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 340322003919 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 340322003920 Dimer interface [polypeptide binding]; other site 340322003921 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 340322003922 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 340322003923 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 340322003924 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 340322003925 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 340322003926 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 340322003927 FAD binding pocket [chemical binding]; other site 340322003928 FAD binding motif [chemical binding]; other site 340322003929 phosphate binding motif [ion binding]; other site 340322003930 NAD binding pocket [chemical binding]; other site 340322003931 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 340322003932 phosphofructokinase; Region: PFK_mixed; TIGR02483 340322003933 active site 340322003934 ADP/pyrophosphate binding site [chemical binding]; other site 340322003935 dimerization interface [polypeptide binding]; other site 340322003936 allosteric effector site; other site 340322003937 fructose-1,6-bisphosphate binding site; other site 340322003938 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322003939 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322003940 DNA binding site [nucleotide binding] 340322003941 domain linker motif; other site 340322003942 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 340322003943 dimerization interface [polypeptide binding]; other site 340322003944 putative ligand binding site [chemical binding]; other site 340322003945 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 340322003946 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 340322003947 Walker A/P-loop; other site 340322003948 ATP binding site [chemical binding]; other site 340322003949 Q-loop/lid; other site 340322003950 ABC transporter signature motif; other site 340322003951 Walker B; other site 340322003952 D-loop; other site 340322003953 H-loop/switch region; other site 340322003954 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 340322003955 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 340322003956 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 340322003957 TM-ABC transporter signature motif; other site 340322003958 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 340322003959 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 340322003960 ligand binding site [chemical binding]; other site 340322003961 dimerization interface [polypeptide binding]; other site 340322003962 D-ribose pyranase; Provisional; Region: PRK11797 340322003963 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 340322003964 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 340322003965 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322003966 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 340322003967 siderophore binding site; other site 340322003968 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 340322003969 Sodium Bile acid symporter family; Region: SBF; pfam01758 340322003970 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 340322003971 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 340322003972 GatB domain; Region: GatB_Yqey; pfam02637 340322003973 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 340322003974 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 340322003975 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 340322003976 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322003977 active site 340322003978 catalytic tetrad [active] 340322003979 L-lysine exporter; Region: 2a75; TIGR00948 340322003980 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 340322003981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322003982 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 340322003983 dimerization interface [polypeptide binding]; other site 340322003984 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 340322003985 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 340322003986 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 340322003987 putative dimer interface [polypeptide binding]; other site 340322003988 N-terminal domain interface [polypeptide binding]; other site 340322003989 putative substrate binding pocket (H-site) [chemical binding]; other site 340322003990 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 340322003991 Predicted membrane protein [Function unknown]; Region: COG2259 340322003992 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 340322003993 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 340322003994 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 340322003995 Mechanosensitive ion channel; Region: MS_channel; pfam00924 340322003996 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 340322003997 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 340322003998 PYR/PP interface [polypeptide binding]; other site 340322003999 dimer interface [polypeptide binding]; other site 340322004000 TPP binding site [chemical binding]; other site 340322004001 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 340322004002 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 340322004003 TPP-binding site [chemical binding]; other site 340322004004 dimer interface [polypeptide binding]; other site 340322004005 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 340322004006 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 340322004007 putative valine binding site [chemical binding]; other site 340322004008 dimer interface [polypeptide binding]; other site 340322004009 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 340322004010 ketol-acid reductoisomerase; Provisional; Region: PRK05479 340322004011 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 340322004012 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 340322004013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004014 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 340322004015 ABC transporter signature motif; other site 340322004016 Walker B; other site 340322004017 D-loop; other site 340322004018 H-loop/switch region; other site 340322004019 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 340322004020 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 340322004021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004022 Walker A/P-loop; other site 340322004023 ATP binding site [chemical binding]; other site 340322004024 Q-loop/lid; other site 340322004025 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 340322004026 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322004027 dimer interface [polypeptide binding]; other site 340322004028 conserved gate region; other site 340322004029 putative PBP binding loops; other site 340322004030 ABC-ATPase subunit interface; other site 340322004031 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 340322004032 NMT1-like family; Region: NMT1_2; pfam13379 340322004033 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 340322004034 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 340322004035 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 340322004036 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 340322004037 Uncharacterized conserved protein [Function unknown]; Region: COG1479 340322004038 Protein of unknown function DUF262; Region: DUF262; pfam03235 340322004039 Uncharacterized conserved protein [Function unknown]; Region: COG3472 340322004040 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 340322004041 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 340322004042 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 340322004043 ligand binding site [chemical binding]; other site 340322004044 NAD binding site [chemical binding]; other site 340322004045 dimerization interface [polypeptide binding]; other site 340322004046 catalytic site [active] 340322004047 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 340322004048 putative L-serine binding site [chemical binding]; other site 340322004049 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 340322004050 tartrate dehydrogenase; Region: TTC; TIGR02089 340322004051 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 340322004052 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 340322004053 substrate binding pocket [chemical binding]; other site 340322004054 membrane-bound complex binding site; other site 340322004055 hinge residues; other site 340322004056 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 340322004057 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 340322004058 ligand binding site [chemical binding]; other site 340322004059 flexible hinge region; other site 340322004060 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 340322004061 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322004062 metal binding triad; other site 340322004063 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 340322004064 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 340322004065 active site 340322004066 catalytic site [active] 340322004067 substrate binding site [chemical binding]; other site 340322004068 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 340322004069 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 340322004070 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 340322004071 Methyltransferase domain; Region: Methyltransf_23; pfam13489 340322004072 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 340322004073 S-adenosylmethionine binding site [chemical binding]; other site 340322004074 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 340322004075 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 340322004076 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 340322004077 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340322004078 active site 340322004079 HIGH motif; other site 340322004080 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340322004081 active site 340322004082 KMSKS motif; other site 340322004083 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 340322004084 salt bridge; other site 340322004085 non-specific DNA binding site [nucleotide binding]; other site 340322004086 sequence-specific DNA binding site [nucleotide binding]; other site 340322004087 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 340322004088 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 340322004089 putative hydrophobic ligand binding site [chemical binding]; other site 340322004090 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322004091 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322004092 WHG domain; Region: WHG; pfam13305 340322004093 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 340322004094 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 340322004095 ThiC-associated domain; Region: ThiC-associated; pfam13667 340322004096 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 340322004097 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 340322004098 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 340322004099 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 340322004100 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 340322004101 active site residue [active] 340322004102 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 340322004103 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 340322004104 HD domain; Region: HD_4; pfam13328 340322004105 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 340322004106 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322004107 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322004108 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 340322004109 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 340322004110 substrate binding site [chemical binding]; other site 340322004111 ligand binding site [chemical binding]; other site 340322004112 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 340322004113 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 340322004114 substrate binding site [chemical binding]; other site 340322004115 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 340322004116 active site 340322004117 Ap6A binding site [chemical binding]; other site 340322004118 nudix motif; other site 340322004119 metal binding site [ion binding]; metal-binding site 340322004120 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 340322004121 catalytic core [active] 340322004122 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 340322004123 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 340322004124 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 340322004125 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 340322004126 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 340322004127 ATP-grasp domain; Region: ATP-grasp_4; cl17255 340322004128 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 340322004129 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 340322004130 thiamine monophosphate kinase; Provisional; Region: PRK05731 340322004131 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 340322004132 ATP binding site [chemical binding]; other site 340322004133 dimerization interface [polypeptide binding]; other site 340322004134 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 340322004135 ligand binding site [chemical binding]; other site 340322004136 active site 340322004137 UGI interface [polypeptide binding]; other site 340322004138 catalytic site [active] 340322004139 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 340322004140 DAK2 domain; Region: Dak2; pfam02734 340322004141 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 340322004142 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 340322004143 generic binding surface II; other site 340322004144 ssDNA binding site; other site 340322004145 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 340322004146 ATP binding site [chemical binding]; other site 340322004147 putative Mg++ binding site [ion binding]; other site 340322004148 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 340322004149 nucleotide binding region [chemical binding]; other site 340322004150 ATP-binding site [chemical binding]; other site 340322004151 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 340322004152 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 340322004153 carboxyltransferase (CT) interaction site; other site 340322004154 biotinylation site [posttranslational modification]; other site 340322004155 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 340322004156 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 340322004157 S-adenosylmethionine binding site [chemical binding]; other site 340322004158 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 340322004159 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 340322004160 active site 340322004161 (T/H)XGH motif; other site 340322004162 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 340322004163 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 340322004164 Walker A/P-loop; other site 340322004165 ATP binding site [chemical binding]; other site 340322004166 Q-loop/lid; other site 340322004167 ABC transporter signature motif; other site 340322004168 Walker B; other site 340322004169 D-loop; other site 340322004170 H-loop/switch region; other site 340322004171 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322004172 dimer interface [polypeptide binding]; other site 340322004173 conserved gate region; other site 340322004174 putative PBP binding loops; other site 340322004175 ABC-ATPase subunit interface; other site 340322004176 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 340322004177 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 340322004178 substrate binding pocket [chemical binding]; other site 340322004179 membrane-bound complex binding site; other site 340322004180 hinge residues; other site 340322004181 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 340322004182 Predicted membrane protein [Function unknown]; Region: COG2035 340322004183 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 340322004184 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 340322004185 active site 340322004186 DNA binding site [nucleotide binding] 340322004187 Int/Topo IB signature motif; other site 340322004188 putative transposase OrfB; Reviewed; Region: PHA02517 340322004189 HTH-like domain; Region: HTH_21; pfam13276 340322004190 Integrase core domain; Region: rve; pfam00665 340322004191 Integrase core domain; Region: rve_3; pfam13683 340322004192 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 340322004193 Transposase; Region: HTH_Tnp_1; pfam01527 340322004194 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 340322004195 Uncharacterized conserved small protein [Function unknown]; Region: COG5428 340322004196 putative assembly protein; Provisional; Region: PRK10833 340322004197 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 340322004198 DNA polymerase I; Provisional; Region: PRK05755 340322004199 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 340322004200 active site 340322004201 metal binding site 1 [ion binding]; metal-binding site 340322004202 putative 5' ssDNA interaction site; other site 340322004203 metal binding site 3; metal-binding site 340322004204 metal binding site 2 [ion binding]; metal-binding site 340322004205 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 340322004206 putative DNA binding site [nucleotide binding]; other site 340322004207 putative metal binding site [ion binding]; other site 340322004208 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 340322004209 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 340322004210 active site 340322004211 DNA binding site [nucleotide binding] 340322004212 catalytic site [active] 340322004213 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322004214 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 340322004215 salt bridge; other site 340322004216 non-specific DNA binding site [nucleotide binding]; other site 340322004217 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340322004218 sequence-specific DNA binding site [nucleotide binding]; other site 340322004219 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 340322004220 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322004221 active site 340322004222 catalytic tetrad [active] 340322004223 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 340322004224 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 340322004225 S-adenosylmethionine binding site [chemical binding]; other site 340322004226 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 340322004227 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 340322004228 RNA binding site [nucleotide binding]; other site 340322004229 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 340322004230 RNA binding site [nucleotide binding]; other site 340322004231 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 340322004232 RNA binding site [nucleotide binding]; other site 340322004233 S1 RNA binding domain; Region: S1; pfam00575 340322004234 RNA binding site [nucleotide binding]; other site 340322004235 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 340322004236 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 340322004237 active site turn [active] 340322004238 phosphorylation site [posttranslational modification] 340322004239 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 340322004240 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 340322004241 HPr interaction site; other site 340322004242 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322004243 active site 340322004244 phosphorylation site [posttranslational modification] 340322004245 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 340322004246 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 340322004247 CoA-binding site [chemical binding]; other site 340322004248 ATP-binding [chemical binding]; other site 340322004249 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 340322004250 active site 340322004251 tetramer interface [polypeptide binding]; other site 340322004252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322004253 putative substrate translocation pore; other site 340322004254 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 340322004255 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 340322004256 substrate binding site [chemical binding]; other site 340322004257 dimer interface [polypeptide binding]; other site 340322004258 ATP binding site [chemical binding]; other site 340322004259 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322004260 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322004261 DNA binding site [nucleotide binding] 340322004262 domain linker motif; other site 340322004263 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 340322004264 dimerization interface [polypeptide binding]; other site 340322004265 putative ligand binding site [chemical binding]; other site 340322004266 excinuclease ABC subunit B; Provisional; Region: PRK05298 340322004267 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 340322004268 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 340322004269 nucleotide binding region [chemical binding]; other site 340322004270 ATP-binding site [chemical binding]; other site 340322004271 Ultra-violet resistance protein B; Region: UvrB; pfam12344 340322004272 UvrB/uvrC motif; Region: UVR; pfam02151 340322004273 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 340322004274 Ligand Binding Site [chemical binding]; other site 340322004275 Predicted transcriptional regulators [Transcription]; Region: COG1733 340322004276 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 340322004277 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 340322004278 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 340322004279 NADP binding site [chemical binding]; other site 340322004280 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 340322004281 Part of AAA domain; Region: AAA_19; pfam13245 340322004282 Family description; Region: UvrD_C_2; pfam13538 340322004283 Predicted membrane protein [Function unknown]; Region: COG2259 340322004284 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 340322004285 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 340322004286 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 340322004287 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 340322004288 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 340322004289 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 340322004290 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 340322004291 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 340322004292 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 340322004293 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 340322004294 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 340322004295 23S rRNA binding site [nucleotide binding]; other site 340322004296 L21 binding site [polypeptide binding]; other site 340322004297 L13 binding site [polypeptide binding]; other site 340322004298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322004299 dimer interface [polypeptide binding]; other site 340322004300 conserved gate region; other site 340322004301 putative PBP binding loops; other site 340322004302 ABC-ATPase subunit interface; other site 340322004303 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322004304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322004305 dimer interface [polypeptide binding]; other site 340322004306 conserved gate region; other site 340322004307 putative PBP binding loops; other site 340322004308 ABC-ATPase subunit interface; other site 340322004309 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 340322004310 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 340322004311 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322004312 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 340322004313 Walker A/P-loop; other site 340322004314 ATP binding site [chemical binding]; other site 340322004315 Q-loop/lid; other site 340322004316 ABC transporter signature motif; other site 340322004317 Walker B; other site 340322004318 D-loop; other site 340322004319 H-loop/switch region; other site 340322004320 TOBE domain; Region: TOBE_2; pfam08402 340322004321 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 340322004322 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 340322004323 active site 340322004324 catalytic site [active] 340322004325 metal binding site [ion binding]; metal-binding site 340322004326 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340322004327 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 340322004328 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 340322004329 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 340322004330 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 340322004331 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 340322004332 dimer interface [polypeptide binding]; other site 340322004333 motif 1; other site 340322004334 active site 340322004335 motif 2; other site 340322004336 motif 3; other site 340322004337 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 340322004338 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 340322004339 putative tRNA-binding site [nucleotide binding]; other site 340322004340 B3/4 domain; Region: B3_4; pfam03483 340322004341 tRNA synthetase B5 domain; Region: B5; smart00874 340322004342 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 340322004343 dimer interface [polypeptide binding]; other site 340322004344 motif 1; other site 340322004345 motif 3; other site 340322004346 motif 2; other site 340322004347 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 340322004348 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 340322004349 active site 340322004350 catalytic triad [active] 340322004351 oxyanion hole [active] 340322004352 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 340322004353 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 340322004354 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 340322004355 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 340322004356 heterotetramer interface [polypeptide binding]; other site 340322004357 active site pocket [active] 340322004358 cleavage site 340322004359 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 340322004360 feedback inhibition sensing region; other site 340322004361 homohexameric interface [polypeptide binding]; other site 340322004362 nucleotide binding site [chemical binding]; other site 340322004363 N-acetyl-L-glutamate binding site [chemical binding]; other site 340322004364 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 340322004365 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 340322004366 inhibitor-cofactor binding pocket; inhibition site 340322004367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322004368 catalytic residue [active] 340322004369 ornithine carbamoyltransferase; Provisional; Region: PRK00779 340322004370 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322004371 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 340322004372 arginine repressor; Provisional; Region: PRK03341 340322004373 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 340322004374 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 340322004375 argininosuccinate synthase; Provisional; Region: PRK13820 340322004376 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 340322004377 ANP binding site [chemical binding]; other site 340322004378 Substrate Binding Site II [chemical binding]; other site 340322004379 Substrate Binding Site I [chemical binding]; other site 340322004380 argininosuccinate lyase; Provisional; Region: PRK00855 340322004381 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 340322004382 active sites [active] 340322004383 tetramer interface [polypeptide binding]; other site 340322004384 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 340322004385 metal ion-dependent adhesion site (MIDAS); other site 340322004386 Uncharacterized conserved protein [Function unknown]; Region: COG2835 340322004387 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 340322004388 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 340322004389 active site 340322004390 HIGH motif; other site 340322004391 dimer interface [polypeptide binding]; other site 340322004392 KMSKS motif; other site 340322004393 S4 RNA-binding domain; Region: S4; smart00363 340322004394 RNA binding surface [nucleotide binding]; other site 340322004395 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 340322004396 Ligand Binding Site [chemical binding]; other site 340322004397 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 340322004398 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 340322004399 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 340322004400 active site 340322004401 motif I; other site 340322004402 motif II; other site 340322004403 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 340322004404 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 340322004405 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 340322004406 RNA binding surface [nucleotide binding]; other site 340322004407 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 340322004408 S-adenosylmethionine binding site [chemical binding]; other site 340322004409 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 340322004410 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 340322004411 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 340322004412 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 340322004413 Walker A/P-loop; other site 340322004414 ATP binding site [chemical binding]; other site 340322004415 Q-loop/lid; other site 340322004416 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 340322004417 ABC transporter signature motif; other site 340322004418 Walker B; other site 340322004419 D-loop; other site 340322004420 H-loop/switch region; other site 340322004421 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 340322004422 Thiamine pyrophosphokinase; Region: TPK; cl08415 340322004423 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 340322004424 CTP synthetase; Validated; Region: pyrG; PRK05380 340322004425 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 340322004426 Catalytic site [active] 340322004427 active site 340322004428 UTP binding site [chemical binding]; other site 340322004429 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 340322004430 active site 340322004431 putative oxyanion hole; other site 340322004432 catalytic triad [active] 340322004433 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 340322004434 dimer interface [polypeptide binding]; other site 340322004435 ADP-ribose binding site [chemical binding]; other site 340322004436 active site 340322004437 nudix motif; other site 340322004438 metal binding site [ion binding]; metal-binding site 340322004439 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 340322004440 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 340322004441 active site 340322004442 Int/Topo IB signature motif; other site 340322004443 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322004444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004445 Walker A/P-loop; other site 340322004446 ATP binding site [chemical binding]; other site 340322004447 Q-loop/lid; other site 340322004448 ABC transporter signature motif; other site 340322004449 Walker B; other site 340322004450 D-loop; other site 340322004451 H-loop/switch region; other site 340322004452 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322004453 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 340322004454 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 340322004455 P-loop; other site 340322004456 Magnesium ion binding site [ion binding]; other site 340322004457 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 340322004458 Magnesium ion binding site [ion binding]; other site 340322004459 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 340322004460 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 340322004461 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 340322004462 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 340322004463 active site residue [active] 340322004464 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 340322004465 active site residue [active] 340322004466 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 340322004467 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 340322004468 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 340322004469 RNA binding surface [nucleotide binding]; other site 340322004470 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 340322004471 active site 340322004472 cytidylate kinase; Provisional; Region: cmk; PRK00023 340322004473 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 340322004474 CMP-binding site; other site 340322004475 The sites determining sugar specificity; other site 340322004476 GTP-binding protein Der; Reviewed; Region: PRK03003 340322004477 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 340322004478 G1 box; other site 340322004479 GTP/Mg2+ binding site [chemical binding]; other site 340322004480 Switch I region; other site 340322004481 G2 box; other site 340322004482 Switch II region; other site 340322004483 G3 box; other site 340322004484 G4 box; other site 340322004485 G5 box; other site 340322004486 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 340322004487 G1 box; other site 340322004488 GTP/Mg2+ binding site [chemical binding]; other site 340322004489 Switch I region; other site 340322004490 G2 box; other site 340322004491 G3 box; other site 340322004492 Switch II region; other site 340322004493 G4 box; other site 340322004494 G5 box; other site 340322004495 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 340322004496 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 340322004497 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 340322004498 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 340322004499 S-adenosylmethionine binding site [chemical binding]; other site 340322004500 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322004501 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322004502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004503 Walker B; other site 340322004504 D-loop; other site 340322004505 H-loop/switch region; other site 340322004506 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322004507 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322004508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004509 Walker A/P-loop; other site 340322004510 ATP binding site [chemical binding]; other site 340322004511 Q-loop/lid; other site 340322004512 ABC transporter signature motif; other site 340322004513 Walker B; other site 340322004514 D-loop; other site 340322004515 H-loop/switch region; other site 340322004516 zinc transporter ZupT; Provisional; Region: PRK04201 340322004517 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 340322004518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 340322004519 SEC-C motif; Region: SEC-C; pfam02810 340322004520 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 340322004521 OsmC-like protein; Region: OsmC; cl00767 340322004522 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 340322004523 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 340322004524 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 340322004525 nucleotide binding region [chemical binding]; other site 340322004526 ATP-binding site [chemical binding]; other site 340322004527 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 340322004528 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 340322004529 phosphopeptide binding site; other site 340322004530 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 340322004531 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 340322004532 DNA binding residues [nucleotide binding] 340322004533 Uncharacterized conserved protein [Function unknown]; Region: COG1259 340322004534 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 340322004535 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 340322004536 DNA binding residues [nucleotide binding] 340322004537 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322004538 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322004539 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322004540 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 340322004541 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322004542 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322004543 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 340322004544 Transporter associated domain; Region: CorC_HlyC; smart01091 340322004545 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 340322004546 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340322004547 ATP binding site [chemical binding]; other site 340322004548 putative Mg++ binding site [ion binding]; other site 340322004549 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 340322004550 nucleotide binding region [chemical binding]; other site 340322004551 ATP-binding site [chemical binding]; other site 340322004552 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 340322004553 FAD binding pocket [chemical binding]; other site 340322004554 FAD binding motif [chemical binding]; other site 340322004555 phosphate binding motif [ion binding]; other site 340322004556 Siderophore-interacting protein; Region: SIP; pfam04954 340322004557 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 340322004558 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 340322004559 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 340322004560 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 340322004561 CoenzymeA binding site [chemical binding]; other site 340322004562 subunit interaction site [polypeptide binding]; other site 340322004563 PHB binding site; other site 340322004564 Methyltransferase domain; Region: Methyltransf_31; pfam13847 340322004565 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 340322004566 S-adenosylmethionine binding site [chemical binding]; other site 340322004567 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 340322004568 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322004569 Walker A/P-loop; other site 340322004570 ATP binding site [chemical binding]; other site 340322004571 Q-loop/lid; other site 340322004572 ABC transporter signature motif; other site 340322004573 Walker B; other site 340322004574 D-loop; other site 340322004575 H-loop/switch region; other site 340322004576 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 340322004577 ABC-2 type transporter; Region: ABC2_membrane; cl17235 340322004578 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 340322004579 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 340322004580 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 340322004581 putative active site [active] 340322004582 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322004583 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322004584 dimer interface [polypeptide binding]; other site 340322004585 conserved gate region; other site 340322004586 ABC-ATPase subunit interface; other site 340322004587 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322004588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322004589 dimer interface [polypeptide binding]; other site 340322004590 conserved gate region; other site 340322004591 ABC-ATPase subunit interface; other site 340322004592 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 340322004593 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 340322004594 Walker A/P-loop; other site 340322004595 ATP binding site [chemical binding]; other site 340322004596 Q-loop/lid; other site 340322004597 ABC transporter signature motif; other site 340322004598 Walker B; other site 340322004599 D-loop; other site 340322004600 H-loop/switch region; other site 340322004601 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 340322004602 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 340322004603 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 340322004604 motif I; other site 340322004605 active site 340322004606 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 340322004607 motif II; other site 340322004608 multifunctional thiamine-phosphate pyrophosphorylase/synthase/phosphomethylpyrimidine kinase; Provisional; Region: PRK09517 340322004609 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 340322004610 thiamine phosphate binding site [chemical binding]; other site 340322004611 active site 340322004612 pyrophosphate binding site [ion binding]; other site 340322004613 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 340322004614 dimer interface [polypeptide binding]; other site 340322004615 substrate binding site [chemical binding]; other site 340322004616 ATP binding site [chemical binding]; other site 340322004617 Putative transcription activator [Transcription]; Region: TenA; COG0819 340322004618 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 340322004619 substrate binding site [chemical binding]; other site 340322004620 multimerization interface [polypeptide binding]; other site 340322004621 ATP binding site [chemical binding]; other site 340322004622 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 340322004623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 340322004624 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322004625 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 340322004626 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322004627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322004628 putative substrate translocation pore; other site 340322004629 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 340322004630 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322004631 active site 340322004632 Predicted membrane protein [Function unknown]; Region: COG1971 340322004633 Domain of unknown function DUF; Region: DUF204; pfam02659 340322004634 Domain of unknown function DUF; Region: DUF204; pfam02659 340322004635 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 340322004636 Sodium Bile acid symporter family; Region: SBF; cl17470 340322004637 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 340322004638 A new structural DNA glycosylase; Region: AlkD_like; cd06561 340322004639 active site 340322004640 high affinity sulphate transporter 1; Region: sulP; TIGR00815 340322004641 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 340322004642 Sulfate transporter family; Region: Sulfate_transp; pfam00916 340322004643 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 340322004644 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 340322004645 Uncharacterized conserved protein [Function unknown]; Region: COG2353 340322004646 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 340322004647 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 340322004648 Ligand binding site; other site 340322004649 Putative Catalytic site; other site 340322004650 DXD motif; other site 340322004651 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 340322004652 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 340322004653 putative active site [active] 340322004654 catalytic triad [active] 340322004655 putative dimer interface [polypeptide binding]; other site 340322004656 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 340322004657 Secretory lipase; Region: LIP; pfam03583 340322004658 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 340322004659 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340322004660 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 340322004661 active site 340322004662 putative homodimer interface [polypeptide binding]; other site 340322004663 SAM binding site [chemical binding]; other site 340322004664 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 340322004665 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 340322004666 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 340322004667 classical (c) SDRs; Region: SDR_c; cd05233 340322004668 NAD(P) binding site [chemical binding]; other site 340322004669 active site 340322004670 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340322004671 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 340322004672 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 340322004673 active site 340322004674 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 340322004675 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 340322004676 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 340322004677 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 340322004678 ATP binding site [chemical binding]; other site 340322004679 putative Mg++ binding site [ion binding]; other site 340322004680 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 340322004681 nucleotide binding region [chemical binding]; other site 340322004682 ATP-binding site [chemical binding]; other site 340322004683 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 340322004684 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 340322004685 Predicted transcriptional regulator [Transcription]; Region: COG2378 340322004686 WYL domain; Region: WYL; pfam13280 340322004687 Predicted transcriptional regulator [Transcription]; Region: COG2378 340322004688 WYL domain; Region: WYL; pfam13280 340322004689 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 340322004690 Pup-like protein; Region: Pup; pfam05639 340322004691 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 340322004692 proteasome ATPase; Region: pup_AAA; TIGR03689 340322004693 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 340322004694 Walker A motif; other site 340322004695 ATP binding site [chemical binding]; other site 340322004696 Walker B motif; other site 340322004697 arginine finger; other site 340322004698 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 340322004699 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 340322004700 S-adenosylmethionine binding site [chemical binding]; other site 340322004701 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 340322004702 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 340322004703 active site 340322004704 metal binding site [ion binding]; metal-binding site 340322004705 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 340322004706 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 340322004707 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 340322004708 non-specific DNA binding site [nucleotide binding]; other site 340322004709 salt bridge; other site 340322004710 sequence-specific DNA binding site [nucleotide binding]; other site 340322004711 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322004712 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322004713 putative substrate translocation pore; other site 340322004714 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 340322004715 Aspartase; Region: Aspartase; cd01357 340322004716 active sites [active] 340322004717 tetramer interface [polypeptide binding]; other site 340322004718 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 340322004719 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 340322004720 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 340322004721 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 340322004722 homodimer interface [polypeptide binding]; other site 340322004723 putative metal binding site [ion binding]; other site 340322004724 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 340322004725 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 340322004726 motif II; other site 340322004727 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 340322004728 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 340322004729 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 340322004730 substrate binding pocket [chemical binding]; other site 340322004731 dimer interface [polypeptide binding]; other site 340322004732 inhibitor binding site; inhibition site 340322004733 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 340322004734 B12 binding site [chemical binding]; other site 340322004735 cobalt ligand [ion binding]; other site 340322004736 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 340322004737 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 340322004738 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322004739 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 340322004740 arsenical-resistance protein; Region: acr3; TIGR00832 340322004741 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322004742 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 340322004743 active site 340322004744 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 340322004745 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322004746 active site 340322004747 cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase; Region: mycothiol_MshC; TIGR03447 340322004748 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322004749 active site 340322004750 HIGH motif; other site 340322004751 nucleotide binding site [chemical binding]; other site 340322004752 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322004753 active site 340322004754 KMSKS motif; other site 340322004755 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340322004756 tRNA binding surface [nucleotide binding]; other site 340322004757 anticodon binding site; other site 340322004758 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 340322004759 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 340322004760 active site 340322004761 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322004762 catalytic tetrad [active] 340322004763 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 340322004764 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 340322004765 quinone interaction residues [chemical binding]; other site 340322004766 active site 340322004767 catalytic residues [active] 340322004768 FMN binding site [chemical binding]; other site 340322004769 substrate binding site [chemical binding]; other site 340322004770 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 340322004771 substrate binding site [chemical binding]; other site 340322004772 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322004773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004774 Walker A/P-loop; other site 340322004775 ATP binding site [chemical binding]; other site 340322004776 Q-loop/lid; other site 340322004777 ABC transporter signature motif; other site 340322004778 Walker B; other site 340322004779 D-loop; other site 340322004780 H-loop/switch region; other site 340322004781 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 340322004782 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322004783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004784 Q-loop/lid; other site 340322004785 ABC transporter signature motif; other site 340322004786 Walker B; other site 340322004787 D-loop; other site 340322004788 H-loop/switch region; other site 340322004789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322004790 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 340322004791 Coenzyme A binding pocket [chemical binding]; other site 340322004792 membrane ATPase/protein kinase; Provisional; Region: PRK09435 340322004793 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 340322004794 Walker A; other site 340322004795 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 340322004796 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 340322004797 active site 340322004798 substrate binding site [chemical binding]; other site 340322004799 coenzyme B12 binding site [chemical binding]; other site 340322004800 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 340322004801 B12 binding site [chemical binding]; other site 340322004802 cobalt ligand [ion binding]; other site 340322004803 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 340322004804 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 340322004805 heterodimer interface [polypeptide binding]; other site 340322004806 substrate interaction site [chemical binding]; other site 340322004807 Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]; Region: Sbm; COG2185 340322004808 Uncharacterized conserved protein [Function unknown]; Region: COG0398 340322004809 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 340322004810 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 340322004811 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 340322004812 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 340322004813 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 340322004814 ferrochelatase; Reviewed; Region: hemH; PRK00035 340322004815 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 340322004816 C-terminal domain interface [polypeptide binding]; other site 340322004817 active site 340322004818 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 340322004819 active site 340322004820 N-terminal domain interface [polypeptide binding]; other site 340322004821 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 340322004822 NlpC/P60 family; Region: NLPC_P60; pfam00877 340322004823 aconitate hydratase; Validated; Region: PRK09277 340322004824 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 340322004825 substrate binding site [chemical binding]; other site 340322004826 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 340322004827 ligand binding site [chemical binding]; other site 340322004828 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 340322004829 substrate binding site [chemical binding]; other site 340322004830 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322004831 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322004832 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 340322004833 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 340322004834 catalytic triad [active] 340322004835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322004836 NADH(P)-binding; Region: NAD_binding_10; pfam13460 340322004837 NAD(P) binding site [chemical binding]; other site 340322004838 active site 340322004839 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 340322004840 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 340322004841 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 340322004842 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 340322004843 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322004844 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 340322004845 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 340322004846 motif II; other site 340322004847 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 340322004848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4762 340322004849 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322004850 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322004851 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322004852 Walker A/P-loop; other site 340322004853 ATP binding site [chemical binding]; other site 340322004854 Q-loop/lid; other site 340322004855 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322004856 ABC transporter signature motif; other site 340322004857 Walker B; other site 340322004858 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322004859 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 340322004860 catalytic site [active] 340322004861 BNR repeat-like domain; Region: BNR_2; pfam13088 340322004862 Asp-box motif; other site 340322004863 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 340322004864 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 340322004865 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 340322004866 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 340322004867 trimerization site [polypeptide binding]; other site 340322004868 active site 340322004869 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 340322004870 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 340322004871 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322004872 catalytic residue [active] 340322004873 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 340322004874 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 340322004875 Walker A/P-loop; other site 340322004876 ATP binding site [chemical binding]; other site 340322004877 Q-loop/lid; other site 340322004878 ABC transporter signature motif; other site 340322004879 Walker B; other site 340322004880 D-loop; other site 340322004881 H-loop/switch region; other site 340322004882 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 340322004883 FeS assembly protein SufD; Region: sufD; TIGR01981 340322004884 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 340322004885 FeS assembly protein SufB; Region: sufB; TIGR01980 340322004886 Predicted transcriptional regulator [Transcription]; Region: COG2345 340322004887 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 340322004888 putative DNA binding site [nucleotide binding]; other site 340322004889 putative Zn2+ binding site [ion binding]; other site 340322004890 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 340322004891 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322004892 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 340322004893 Walker A/P-loop; other site 340322004894 ATP binding site [chemical binding]; other site 340322004895 Q-loop/lid; other site 340322004896 ABC transporter signature motif; other site 340322004897 Walker B; other site 340322004898 D-loop; other site 340322004899 H-loop/switch region; other site 340322004900 ABC-2 type transporter; Region: ABC2_membrane; cl17235 340322004901 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 340322004902 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 340322004903 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 340322004904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 340322004905 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322004906 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 340322004907 ATP binding site [chemical binding]; other site 340322004908 putative Mg++ binding site [ion binding]; other site 340322004909 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 340322004910 nucleotide binding region [chemical binding]; other site 340322004911 ATP-binding site [chemical binding]; other site 340322004912 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 340322004913 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 340322004914 NADP binding site [chemical binding]; other site 340322004915 dimer interface [polypeptide binding]; other site 340322004916 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 340322004917 UbiA prenyltransferase family; Region: UbiA; pfam01040 340322004918 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 340322004919 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 340322004920 TPP-binding site [chemical binding]; other site 340322004921 dimer interface [polypeptide binding]; other site 340322004922 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 340322004923 PYR/PP interface [polypeptide binding]; other site 340322004924 dimer interface [polypeptide binding]; other site 340322004925 TPP binding site [chemical binding]; other site 340322004926 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 340322004927 putative active site [active] 340322004928 transaldolase; Provisional; Region: PRK03903 340322004929 catalytic residue [active] 340322004930 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 340322004931 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 340322004932 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 340322004933 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 340322004934 Glucose-6-P dehydrogenase subunit [Carbohydrate transport and metabolism]; Region: COG3429 340322004935 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 340322004936 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 340322004937 putative active site [active] 340322004938 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 340322004939 hydroxyglutarate oxidase; Provisional; Region: PRK11728 340322004940 ornithine cyclodeaminase; Validated; Region: PRK06199 340322004941 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 340322004942 ammonium transporter; Region: amt; TIGR00836 340322004943 Preprotein translocase SecG subunit; Region: SecG; cl09123 340322004944 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 340322004945 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 340322004946 triosephosphate isomerase; Provisional; Region: PRK14567 340322004947 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 340322004948 substrate binding site [chemical binding]; other site 340322004949 dimer interface [polypeptide binding]; other site 340322004950 catalytic triad [active] 340322004951 Phosphoglycerate kinase; Region: PGK; pfam00162 340322004952 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 340322004953 substrate binding site [chemical binding]; other site 340322004954 hinge regions; other site 340322004955 ADP binding site [chemical binding]; other site 340322004956 catalytic site [active] 340322004957 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 340322004958 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 340322004959 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 340322004960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 340322004961 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 340322004962 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 340322004963 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 340322004964 phosphate binding site [ion binding]; other site 340322004965 putative substrate binding pocket [chemical binding]; other site 340322004966 dimer interface [polypeptide binding]; other site 340322004967 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 340322004968 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 340322004969 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 340322004970 GIY-YIG motif/motif A; other site 340322004971 active site 340322004972 catalytic site [active] 340322004973 putative DNA binding site [nucleotide binding]; other site 340322004974 metal binding site [ion binding]; metal-binding site 340322004975 UvrB/uvrC motif; Region: UVR; pfam02151 340322004976 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 340322004977 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 340322004978 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 340322004979 homopentamer interface [polypeptide binding]; other site 340322004980 active site 340322004981 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 340322004982 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 340322004983 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 340322004984 dimerization interface [polypeptide binding]; other site 340322004985 active site 340322004986 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 340322004987 Lumazine binding domain; Region: Lum_binding; pfam00677 340322004988 Lumazine binding domain; Region: Lum_binding; pfam00677 340322004989 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 340322004990 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 340322004991 catalytic motif [active] 340322004992 Zn binding site [ion binding]; other site 340322004993 RibD C-terminal domain; Region: RibD_C; pfam01872 340322004994 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 340322004995 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 340322004996 substrate binding site [chemical binding]; other site 340322004997 hexamer interface [polypeptide binding]; other site 340322004998 metal binding site [ion binding]; metal-binding site 340322004999 16S rRNA methyltransferase B; Provisional; Region: PRK14902 340322005000 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 340322005001 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 340322005002 S-adenosylmethionine binding site [chemical binding]; other site 340322005003 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 340322005004 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 340322005005 putative active site [active] 340322005006 substrate binding site [chemical binding]; other site 340322005007 putative cosubstrate binding site; other site 340322005008 catalytic site [active] 340322005009 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 340322005010 substrate binding site [chemical binding]; other site 340322005011 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 340322005012 active site 340322005013 catalytic residues [active] 340322005014 metal binding site [ion binding]; metal-binding site 340322005015 primosome assembly protein PriA; Provisional; Region: PRK14873 340322005016 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 340322005017 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 340322005018 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 340322005019 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 340322005020 Flavoprotein; Region: Flavoprotein; pfam02441 340322005021 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 340322005022 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 340322005023 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 340322005024 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 340322005025 catalytic site [active] 340322005026 G-X2-G-X-G-K; other site 340322005027 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 340322005028 active site 340322005029 dimer interface [polypeptide binding]; other site 340322005030 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 340322005031 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322005032 ATP-grasp domain; Region: ATP-grasp_4; cl17255 340322005033 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 340322005034 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322005035 ATP-grasp domain; Region: ATP-grasp_4; cl17255 340322005036 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 340322005037 IMP binding site; other site 340322005038 dimer interface [polypeptide binding]; other site 340322005039 interdomain contacts; other site 340322005040 partial ornithine binding site; other site 340322005041 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 340322005042 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 340322005043 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 340322005044 catalytic site [active] 340322005045 subunit interface [polypeptide binding]; other site 340322005046 dihydroorotase; Validated; Region: pyrC; PRK09357 340322005047 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 340322005048 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 340322005049 active site 340322005050 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 340322005051 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322005052 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 340322005053 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 340322005054 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322005055 active site 340322005056 Uncharacterized conserved protein [Function unknown]; Region: COG4276 340322005057 hydrophobic ligand binding site; other site 340322005058 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 340322005059 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 340322005060 putative NAD(P) binding site [chemical binding]; other site 340322005061 putative active site [active] 340322005062 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 340322005063 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 340322005064 Transcription termination factor [Transcription]; Region: NusB; COG0781 340322005065 putative RNA binding site [nucleotide binding]; other site 340322005066 elongation factor P; Validated; Region: PRK00529 340322005067 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 340322005068 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 340322005069 RNA binding site [nucleotide binding]; other site 340322005070 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 340322005071 RNA binding site [nucleotide binding]; other site 340322005072 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340322005073 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 340322005074 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 340322005075 active site 340322005076 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 340322005077 active site 340322005078 dimer interface [polypeptide binding]; other site 340322005079 metal binding site [ion binding]; metal-binding site 340322005080 shikimate kinase; Reviewed; Region: aroK; PRK00131 340322005081 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 340322005082 ADP binding site [chemical binding]; other site 340322005083 magnesium binding site [ion binding]; other site 340322005084 putative shikimate binding site; other site 340322005085 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 340322005086 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 340322005087 Tetramer interface [polypeptide binding]; other site 340322005088 active site 340322005089 FMN-binding site [chemical binding]; other site 340322005090 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 340322005091 dimerization interface [polypeptide binding]; other site 340322005092 putative DNA binding site [nucleotide binding]; other site 340322005093 putative Zn2+ binding site [ion binding]; other site 340322005094 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 340322005095 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 340322005096 ABC-ATPase subunit interface; other site 340322005097 dimer interface [polypeptide binding]; other site 340322005098 putative PBP binding regions; other site 340322005099 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322005100 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 340322005101 putative ligand binding residues [chemical binding]; other site 340322005102 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322005103 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322005104 Walker A/P-loop; other site 340322005105 ATP binding site [chemical binding]; other site 340322005106 Q-loop/lid; other site 340322005107 ABC transporter signature motif; other site 340322005108 Walker B; other site 340322005109 D-loop; other site 340322005110 H-loop/switch region; other site 340322005111 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 340322005112 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 340322005113 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 340322005114 shikimate binding site; other site 340322005115 NAD(P) binding site [chemical binding]; other site 340322005116 YceG-like family; Region: YceG; pfam02618 340322005117 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 340322005118 dimerization interface [polypeptide binding]; other site 340322005119 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 340322005120 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 340322005121 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 340322005122 motif 1; other site 340322005123 active site 340322005124 motif 2; other site 340322005125 motif 3; other site 340322005126 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 340322005127 recombination factor protein RarA; Reviewed; Region: PRK13342 340322005128 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 340322005129 Walker A motif; other site 340322005130 ATP binding site [chemical binding]; other site 340322005131 Walker B motif; other site 340322005132 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 340322005133 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 340322005134 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 340322005135 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 340322005136 dimer interface [polypeptide binding]; other site 340322005137 anticodon binding site; other site 340322005138 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 340322005139 homodimer interface [polypeptide binding]; other site 340322005140 motif 1; other site 340322005141 active site 340322005142 motif 2; other site 340322005143 GAD domain; Region: GAD; pfam02938 340322005144 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 340322005145 active site 340322005146 motif 3; other site 340322005147 Predicted metalloprotease [General function prediction only]; Region: COG2321 340322005148 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 340322005149 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340322005150 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 340322005151 ATP binding site [chemical binding]; other site 340322005152 putative Mg++ binding site [ion binding]; other site 340322005153 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 340322005154 nucleotide binding region [chemical binding]; other site 340322005155 ATP-binding site [chemical binding]; other site 340322005156 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 340322005157 Predicted membrane protein [Function unknown]; Region: COG1511 340322005158 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 340322005159 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 340322005160 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 340322005161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322005162 Q-loop/lid; other site 340322005163 ABC transporter signature motif; other site 340322005164 Walker B; other site 340322005165 D-loop; other site 340322005166 H-loop/switch region; other site 340322005167 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322005168 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322005169 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 340322005170 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322005171 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 340322005172 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 340322005173 LLM-partnered FMN reductase, CE1759 family; Region: LLM_duo_CE1759; TIGR04037 340322005174 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 340322005175 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 340322005176 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 340322005177 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 340322005178 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 340322005179 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 340322005180 dimer interface [polypeptide binding]; other site 340322005181 motif 1; other site 340322005182 active site 340322005183 motif 2; other site 340322005184 motif 3; other site 340322005185 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 340322005186 anticodon binding site; other site 340322005187 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 340322005188 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 340322005189 active site 340322005190 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 340322005191 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 340322005192 Zn2+ binding site [ion binding]; other site 340322005193 Mg2+ binding site [ion binding]; other site 340322005194 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340322005195 synthetase active site [active] 340322005196 NTP binding site [chemical binding]; other site 340322005197 metal binding site [ion binding]; metal-binding site 340322005198 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 340322005199 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 340322005200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322005201 active site 340322005202 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 340322005203 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 340322005204 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 340322005205 Protein export membrane protein; Region: SecD_SecF; cl14618 340322005206 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 340322005207 Protein export membrane protein; Region: SecD_SecF; cl14618 340322005208 Preprotein translocase subunit; Region: YajC; pfam02699 340322005209 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 340322005210 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 340322005211 Walker A motif; other site 340322005212 ATP binding site [chemical binding]; other site 340322005213 Walker B motif; other site 340322005214 arginine finger; other site 340322005215 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 340322005216 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 340322005217 RuvA N terminal domain; Region: RuvA_N; pfam01330 340322005218 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 340322005219 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 340322005220 active site 340322005221 putative DNA-binding cleft [nucleotide binding]; other site 340322005222 dimer interface [polypeptide binding]; other site 340322005223 hypothetical protein; Validated; Region: PRK00110 340322005224 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 340322005225 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 340322005226 active site 340322005227 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 340322005228 catalytic triad [active] 340322005229 dimer interface [polypeptide binding]; other site 340322005230 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 340322005231 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322005232 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 340322005233 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 340322005234 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 340322005235 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 340322005236 putative acyl-acceptor binding pocket; other site 340322005237 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 340322005238 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 340322005239 nucleotide binding site/active site [active] 340322005240 HIT family signature motif; other site 340322005241 catalytic residue [active] 340322005242 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 340322005243 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 340322005244 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 340322005245 active site 340322005246 dimer interface [polypeptide binding]; other site 340322005247 motif 1; other site 340322005248 motif 2; other site 340322005249 motif 3; other site 340322005250 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 340322005251 anticodon binding site; other site 340322005252 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 340322005253 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 340322005254 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 340322005255 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 340322005256 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 340322005257 hypothetical protein; Provisional; Region: PRK14059 340322005258 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 340322005259 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 340322005260 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 340322005261 SelR domain; Region: SelR; pfam01641 340322005262 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 340322005263 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 340322005264 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 340322005265 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 340322005266 catalytic site [active] 340322005267 putative active site [active] 340322005268 putative substrate binding site [chemical binding]; other site 340322005269 HRDC domain; Region: HRDC; pfam00570 340322005270 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 340322005271 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 340322005272 TPP-binding site; other site 340322005273 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 340322005274 PYR/PP interface [polypeptide binding]; other site 340322005275 dimer interface [polypeptide binding]; other site 340322005276 TPP binding site [chemical binding]; other site 340322005277 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 340322005278 TRAM domain; Region: TRAM; pfam01938 340322005279 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 340322005280 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 340322005281 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 340322005282 trimer interface [polypeptide binding]; other site 340322005283 active site 340322005284 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 340322005285 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 340322005286 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 340322005287 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 340322005288 active site 340322005289 dimerization interface [polypeptide binding]; other site 340322005290 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340322005291 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 340322005292 nucleotide binding site [chemical binding]; other site 340322005293 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 340322005294 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 340322005295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322005296 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 340322005297 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 340322005298 DNA binding residues [nucleotide binding] 340322005299 Predicted membrane protein [Function unknown]; Region: COG2311 340322005300 Protein of unknown function (DUF418); Region: DUF418; cl12135 340322005301 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322005302 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 340322005303 ATP binding site [chemical binding]; other site 340322005304 putative Mg++ binding site [ion binding]; other site 340322005305 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 340322005306 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 340322005307 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 340322005308 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 340322005309 S-adenosylmethionine binding site [chemical binding]; other site 340322005310 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 340322005311 putative active site [active] 340322005312 dimerization interface [polypeptide binding]; other site 340322005313 putative tRNAtyr binding site [nucleotide binding]; other site 340322005314 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 340322005315 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 340322005316 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322005317 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 340322005318 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 340322005319 DNA binding residues [nucleotide binding] 340322005320 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 340322005321 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 340322005322 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322005323 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 340322005324 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 340322005325 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 340322005326 NAD binding site [chemical binding]; other site 340322005327 homodimer interface [polypeptide binding]; other site 340322005328 active site 340322005329 substrate binding site [chemical binding]; other site 340322005330 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 340322005331 PAC2 family; Region: PAC2; pfam09754 340322005332 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340322005333 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 340322005334 ATP binding site [chemical binding]; other site 340322005335 putative Mg++ binding site [ion binding]; other site 340322005336 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 340322005337 nucleotide binding region [chemical binding]; other site 340322005338 ATP-binding site [chemical binding]; other site 340322005339 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 340322005340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322005341 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 340322005342 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 340322005343 dimerization interface [polypeptide binding]; other site 340322005344 Predicted integral membrane protein [Function unknown]; Region: COG5473 340322005345 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 340322005346 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 340322005347 ATP binding site [chemical binding]; other site 340322005348 putative Mg++ binding site [ion binding]; other site 340322005349 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 340322005350 nucleotide binding region [chemical binding]; other site 340322005351 ATP-binding site [chemical binding]; other site 340322005352 Helicase associated domain (HA2); Region: HA2; pfam04408 340322005353 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 340322005354 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 340322005355 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 340322005356 ATP cone domain; Region: ATP-cone; pfam03477 340322005357 LexA repressor; Validated; Region: PRK00215 340322005358 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 340322005359 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 340322005360 Catalytic site [active] 340322005361 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322005362 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 340322005363 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 340322005364 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 340322005365 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 340322005366 substrate binding site [chemical binding]; other site 340322005367 ATP binding site [chemical binding]; other site 340322005368 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 340322005369 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 340322005370 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 340322005371 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 340322005372 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322005373 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 340322005374 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 340322005375 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 340322005376 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 340322005377 putative substrate binding site [chemical binding]; other site 340322005378 putative ATP binding site [chemical binding]; other site 340322005379 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 340322005380 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 340322005381 active site 340322005382 phosphorylation site [posttranslational modification] 340322005383 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 340322005384 active site 340322005385 P-loop; other site 340322005386 phosphorylation site [posttranslational modification] 340322005387 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 340322005388 Phosphotransferase System HPr (HPr) Family; Region: PTS_HPr_family; TIGR01003 340322005389 dimerization domain swap beta strand [polypeptide binding]; other site 340322005390 regulatory protein interface [polypeptide binding]; other site 340322005391 active site 340322005392 regulatory phosphorylation site [posttranslational modification]; other site 340322005393 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 340322005394 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 340322005395 GTPases [General function prediction only]; Region: HflX; COG2262 340322005396 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 340322005397 HflX GTPase family; Region: HflX; cd01878 340322005398 G1 box; other site 340322005399 GTP/Mg2+ binding site [chemical binding]; other site 340322005400 Switch I region; other site 340322005401 G2 box; other site 340322005402 G3 box; other site 340322005403 Switch II region; other site 340322005404 G4 box; other site 340322005405 G5 box; other site 340322005406 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 340322005407 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 340322005408 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 340322005409 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 340322005410 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 340322005411 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 340322005412 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 340322005413 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 340322005414 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 340322005415 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 340322005416 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 340322005417 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 340322005418 FeS/SAM binding site; other site 340322005419 TRAM domain; Region: TRAM; cl01282 340322005420 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 340322005421 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 340322005422 Walker A/P-loop; other site 340322005423 ATP binding site [chemical binding]; other site 340322005424 Q-loop/lid; other site 340322005425 ABC transporter signature motif; other site 340322005426 Walker B; other site 340322005427 D-loop; other site 340322005428 H-loop/switch region; other site 340322005429 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 340322005430 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 340322005431 substrate binding pocket [chemical binding]; other site 340322005432 membrane-bound complex binding site; other site 340322005433 hinge residues; other site 340322005434 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 340322005435 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322005436 dimer interface [polypeptide binding]; other site 340322005437 conserved gate region; other site 340322005438 putative PBP binding loops; other site 340322005439 ABC-ATPase subunit interface; other site 340322005440 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 340322005441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322005442 dimer interface [polypeptide binding]; other site 340322005443 conserved gate region; other site 340322005444 putative PBP binding loops; other site 340322005445 ABC-ATPase subunit interface; other site 340322005446 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 340322005447 recombinase A; Provisional; Region: recA; PRK09354 340322005448 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 340322005449 hexamer interface [polypeptide binding]; other site 340322005450 Walker A motif; other site 340322005451 ATP binding site [chemical binding]; other site 340322005452 Walker B motif; other site 340322005453 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 340322005454 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 340322005455 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322005456 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 340322005457 Walker A/P-loop; other site 340322005458 ATP binding site [chemical binding]; other site 340322005459 Q-loop/lid; other site 340322005460 ABC transporter signature motif; other site 340322005461 Walker B; other site 340322005462 D-loop; other site 340322005463 H-loop/switch region; other site 340322005464 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 340322005465 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 340322005466 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 340322005467 non-specific DNA binding site [nucleotide binding]; other site 340322005468 salt bridge; other site 340322005469 sequence-specific DNA binding site [nucleotide binding]; other site 340322005470 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 340322005471 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 340322005472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 340322005473 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 340322005474 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 340322005475 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 340322005476 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 340322005477 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 340322005478 TIGR03085 family protein; Region: TIGR03085 340322005479 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 340322005480 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 340322005481 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 340322005482 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 340322005483 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 340322005484 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 340322005485 dimer interface [polypeptide binding]; other site 340322005486 active site 340322005487 catalytic residue [active] 340322005488 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 340322005489 dihydrodipicolinate reductase; Provisional; Region: PRK00048 340322005490 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 340322005491 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 340322005492 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 340322005493 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 340322005494 oligomer interface [polypeptide binding]; other site 340322005495 RNA binding site [nucleotide binding]; other site 340322005496 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 340322005497 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 340322005498 RNase E interface [polypeptide binding]; other site 340322005499 trimer interface [polypeptide binding]; other site 340322005500 active site 340322005501 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 340322005502 putative nucleic acid binding region [nucleotide binding]; other site 340322005503 G-X-X-G motif; other site 340322005504 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 340322005505 RNA binding site [nucleotide binding]; other site 340322005506 domain interface; other site 340322005507 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 340322005508 16S/18S rRNA binding site [nucleotide binding]; other site 340322005509 S13e-L30e interaction site [polypeptide binding]; other site 340322005510 25S rRNA binding site [nucleotide binding]; other site 340322005511 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 340322005512 active site 340322005513 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 340322005514 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 340322005515 active site 340322005516 Riboflavin kinase; Region: Flavokinase; smart00904 340322005517 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 340322005518 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 340322005519 RNA binding site [nucleotide binding]; other site 340322005520 active site 340322005521 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 340322005522 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 340322005523 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 340322005524 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 340322005525 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322005526 active site 340322005527 metal binding site [ion binding]; metal-binding site 340322005528 putative phosphoesterase; Region: acc_ester; TIGR03729 340322005529 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 340322005530 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 340322005531 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 340322005532 DHH family; Region: DHH; pfam01368 340322005533 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 340322005534 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340322005535 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340322005536 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 340322005537 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 340322005538 G1 box; other site 340322005539 putative GEF interaction site [polypeptide binding]; other site 340322005540 GTP/Mg2+ binding site [chemical binding]; other site 340322005541 Switch I region; other site 340322005542 G2 box; other site 340322005543 G3 box; other site 340322005544 Switch II region; other site 340322005545 G4 box; other site 340322005546 G5 box; other site 340322005547 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 340322005548 Translation-initiation factor 2; Region: IF-2; pfam11987 340322005549 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 340322005550 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; cd00279 340322005551 putative RNA binding cleft [nucleotide binding]; other site 340322005552 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 340322005553 NusA N-terminal domain; Region: NusA_N; pfam08529 340322005554 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 340322005555 RNA binding site [nucleotide binding]; other site 340322005556 homodimer interface [polypeptide binding]; other site 340322005557 NusA-like KH domain; Region: KH_5; pfam13184 340322005558 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 340322005559 G-X-X-G motif; other site 340322005560 ribosome maturation protein RimP; Reviewed; Region: PRK00092 340322005561 Sm and related proteins; Region: Sm_like; cl00259 340322005562 Sm and related proteins; Region: Sm_like; cl00259 340322005563 heptamer interface [polypeptide binding]; other site 340322005564 Sm1 motif; other site 340322005565 hexamer interface [polypeptide binding]; other site 340322005566 RNA binding site [nucleotide binding]; other site 340322005567 Sm2 motif; other site 340322005568 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 340322005569 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 340322005570 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322005571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322005572 dimer interface [polypeptide binding]; other site 340322005573 conserved gate region; other site 340322005574 ABC-ATPase subunit interface; other site 340322005575 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 340322005576 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322005577 dimer interface [polypeptide binding]; other site 340322005578 conserved gate region; other site 340322005579 putative PBP binding loops; other site 340322005580 ABC-ATPase subunit interface; other site 340322005581 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 340322005582 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322005583 Walker A/P-loop; other site 340322005584 ATP binding site [chemical binding]; other site 340322005585 Q-loop/lid; other site 340322005586 ABC transporter signature motif; other site 340322005587 Walker B; other site 340322005588 D-loop; other site 340322005589 H-loop/switch region; other site 340322005590 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322005591 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322005592 Walker A/P-loop; other site 340322005593 ATP binding site [chemical binding]; other site 340322005594 Q-loop/lid; other site 340322005595 ABC transporter signature motif; other site 340322005596 Walker B; other site 340322005597 D-loop; other site 340322005598 H-loop/switch region; other site 340322005599 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322005600 prolyl-tRNA synthetase; Provisional; Region: PRK09194 340322005601 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 340322005602 dimer interface [polypeptide binding]; other site 340322005603 motif 1; other site 340322005604 active site 340322005605 motif 2; other site 340322005606 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 340322005607 putative deacylase active site [active] 340322005608 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 340322005609 active site 340322005610 motif 3; other site 340322005611 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 340322005612 anticodon binding site; other site 340322005613 hypothetical protein; Validated; Region: PRK02101 340322005614 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 340322005615 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 340322005616 metal ion-dependent adhesion site (MIDAS); other site 340322005617 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 340322005618 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 340322005619 Walker A motif; other site 340322005620 ATP binding site [chemical binding]; other site 340322005621 Walker B motif; other site 340322005622 arginine finger; other site 340322005623 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 340322005624 active site 340322005625 SAM binding site [chemical binding]; other site 340322005626 homodimer interface [polypeptide binding]; other site 340322005627 Uncharacterized conserved protein [Function unknown]; Region: COG0397 340322005628 hypothetical protein; Validated; Region: PRK00029 340322005629 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 340322005630 dimer interface [polypeptide binding]; other site 340322005631 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 340322005632 dimer interface [polypeptide binding]; other site 340322005633 malate:quinone oxidoreductase; Validated; Region: PRK05257 340322005634 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 340322005635 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 340322005636 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 340322005637 mycothione reductase; Region: mycothione_red; TIGR03452 340322005638 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322005639 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322005640 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 340322005641 active site 340322005642 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 340322005643 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 340322005644 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 340322005645 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322005646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322005647 active site 340322005648 phosphorylation site [posttranslational modification] 340322005649 intermolecular recognition site; other site 340322005650 dimerization interface [polypeptide binding]; other site 340322005651 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 340322005652 DNA binding residues [nucleotide binding] 340322005653 dimerization interface [polypeptide binding]; other site 340322005654 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 340322005655 Histidine kinase; Region: HisKA_3; pfam07730 340322005656 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 340322005657 Mg2+ binding site [ion binding]; other site 340322005658 G-X-G motif; other site 340322005659 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340322005660 FtsX-like permease family; Region: FtsX; pfam02687 340322005661 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 340322005662 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322005663 Walker A/P-loop; other site 340322005664 ATP binding site [chemical binding]; other site 340322005665 Q-loop/lid; other site 340322005666 ABC transporter signature motif; other site 340322005667 Walker B; other site 340322005668 D-loop; other site 340322005669 H-loop/switch region; other site 340322005670 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 340322005671 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 340322005672 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 340322005673 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 340322005674 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 340322005675 active site 340322005676 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 340322005677 protein binding site [polypeptide binding]; other site 340322005678 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 340322005679 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 340322005680 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 340322005681 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 340322005682 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 340322005683 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 340322005684 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 340322005685 Walker A/P-loop; other site 340322005686 ATP binding site [chemical binding]; other site 340322005687 Q-loop/lid; other site 340322005688 ABC transporter signature motif; other site 340322005689 Walker B; other site 340322005690 D-loop; other site 340322005691 H-loop/switch region; other site 340322005692 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 340322005693 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 340322005694 FeS/SAM binding site; other site 340322005695 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 340322005696 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 340322005697 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 340322005698 ribosome recycling factor; Reviewed; Region: frr; PRK00083 340322005699 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 340322005700 hinge region; other site 340322005701 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 340322005702 putative nucleotide binding site [chemical binding]; other site 340322005703 uridine monophosphate binding site [chemical binding]; other site 340322005704 homohexameric interface [polypeptide binding]; other site 340322005705 elongation factor Ts; Provisional; Region: tsf; PRK09377 340322005706 UBA/TS-N domain; Region: UBA; pfam00627 340322005707 Elongation factor TS; Region: EF_TS; pfam00889 340322005708 Elongation factor TS; Region: EF_TS; pfam00889 340322005709 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 340322005710 rRNA interaction site [nucleotide binding]; other site 340322005711 S8 interaction site; other site 340322005712 putative laminin-1 binding site; other site 340322005713 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 340322005714 Peptidase family M23; Region: Peptidase_M23; pfam01551 340322005715 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 340322005716 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 340322005717 active site 340322005718 DNA binding site [nucleotide binding] 340322005719 Int/Topo IB signature motif; other site 340322005720 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 340322005721 DNA protecting protein DprA; Region: dprA; TIGR00732 340322005722 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 340322005723 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 340322005724 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 340322005725 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 340322005726 hypothetical protein; Reviewed; Region: PRK12497 340322005727 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 340322005728 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 340322005729 RNA/DNA hybrid binding site [nucleotide binding]; other site 340322005730 active site 340322005731 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 340322005732 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 340322005733 Catalytic site [active] 340322005734 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 340322005735 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322005736 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 340322005737 siderophore binding site; other site 340322005738 CsbD-like; Region: CsbD; pfam05532 340322005739 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 340322005740 helix-hairpin-helix signature motif; other site 340322005741 substrate binding pocket [chemical binding]; other site 340322005742 active site 340322005743 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; cl02712 340322005744 amidase catalytic site [active] 340322005745 Zn binding residues [ion binding]; other site 340322005746 substrate binding site [chemical binding]; other site 340322005747 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 340322005748 Phage-related protein [Function unknown]; Region: COG5412 340322005749 membrane protein P6; Region: PHA01399 340322005750 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 340322005751 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 340322005752 N-acetyl-D-glucosamine binding site [chemical binding]; other site 340322005753 catalytic residue [active] 340322005754 Phage protein Gp19/Gp15/Gp42; Region: Phage_Gp19; pfam09355 340322005755 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 340322005756 oligomer interface [polypeptide binding]; other site 340322005757 active site residues [active] 340322005758 Phage Terminase; Region: Terminase_1; pfam03354 340322005759 Phage terminase, small subunit; Region: Terminase_4; cl01525 340322005760 Restriction endonuclease; Region: Mrr_cat; pfam04471 340322005761 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 340322005762 catalytic site [active] 340322005763 putative active site [active] 340322005764 putative substrate binding site [chemical binding]; other site 340322005765 dimer interface [polypeptide binding]; other site 340322005766 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322005767 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 340322005768 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 340322005769 dimer interface [polypeptide binding]; other site 340322005770 ssDNA binding site [nucleotide binding]; other site 340322005771 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322005772 Prophage antirepressor [Transcription]; Region: COG3617 340322005773 BRO family, N-terminal domain; Region: Bro-N; smart01040 340322005774 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 340322005775 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; cl17393 340322005776 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 340322005777 sequence-specific DNA binding site [nucleotide binding]; other site 340322005778 salt bridge; other site 340322005779 Domain of unknown function (DUF955); Region: DUF955; pfam06114 340322005780 TM2 domain; Region: TM2; pfam05154 340322005781 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 340322005782 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 340322005783 Int/Topo IB signature motif; other site 340322005784 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 340322005785 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 340322005786 active site 340322005787 pyrophosphate binding site [ion binding]; other site 340322005788 thiamine phosphate binding site [chemical binding]; other site 340322005789 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 340322005790 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 340322005791 thiS-thiF/thiG interaction site; other site 340322005792 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 340322005793 ThiS interaction site; other site 340322005794 putative active site [active] 340322005795 tetramer interface [polypeptide binding]; other site 340322005796 thiamine biosynthesis protein ThiF; Validated; Region: PRK05600 340322005797 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 340322005798 ATP binding site [chemical binding]; other site 340322005799 substrate interface [chemical binding]; other site 340322005800 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 340322005801 active site residue [active] 340322005802 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 340322005803 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 340322005804 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 340322005805 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 340322005806 RNA binding site [nucleotide binding]; other site 340322005807 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322005808 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322005809 DNA binding site [nucleotide binding] 340322005810 domain linker motif; other site 340322005811 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 340322005812 dimerization interface [polypeptide binding]; other site 340322005813 ligand binding site [chemical binding]; other site 340322005814 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 340322005815 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 340322005816 transmembrane helices; other site 340322005817 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 340322005818 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 340322005819 tetramer interface [polypeptide binding]; other site 340322005820 active site 340322005821 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340322005822 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 340322005823 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 340322005824 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 340322005825 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 340322005826 RimM N-terminal domain; Region: RimM; pfam01782 340322005827 PRC-barrel domain; Region: PRC; pfam05239 340322005828 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 340322005829 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 340322005830 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 340322005831 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 340322005832 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 340322005833 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322005834 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322005835 Walker A/P-loop; other site 340322005836 ATP binding site [chemical binding]; other site 340322005837 Q-loop/lid; other site 340322005838 ABC transporter signature motif; other site 340322005839 Walker B; other site 340322005840 D-loop; other site 340322005841 H-loop/switch region; other site 340322005842 signal recognition particle protein; Provisional; Region: PRK10867 340322005843 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 340322005844 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 340322005845 P loop; other site 340322005846 GTP binding site [chemical binding]; other site 340322005847 Signal peptide binding domain; Region: SRP_SPB; pfam02978 340322005848 PII uridylyl-transferase; Provisional; Region: glnD; PRK00227 340322005849 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322005850 metal binding triad; other site 340322005851 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 340322005852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 340322005853 Zn2+ binding site [ion binding]; other site 340322005854 Mg2+ binding site [ion binding]; other site 340322005855 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 340322005856 Nitrogen regulatory protein P-II; Region: P-II; smart00938 340322005857 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 340322005858 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 340322005859 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 340322005860 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 340322005861 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 340322005862 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 340322005863 Walker A/P-loop; other site 340322005864 ATP binding site [chemical binding]; other site 340322005865 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 340322005866 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 340322005867 ABC transporter signature motif; other site 340322005868 Walker B; other site 340322005869 D-loop; other site 340322005870 H-loop/switch region; other site 340322005871 acylphosphatase; Provisional; Region: PRK14422 340322005872 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 340322005873 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322005874 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 340322005875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322005876 dimerization interface [polypeptide binding]; other site 340322005877 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 340322005878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4815 340322005879 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 340322005880 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 340322005881 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 340322005882 DNA binding site [nucleotide binding] 340322005883 catalytic residue [active] 340322005884 H2TH interface [polypeptide binding]; other site 340322005885 putative catalytic residues [active] 340322005886 turnover-facilitating residue; other site 340322005887 intercalation triad [nucleotide binding]; other site 340322005888 8OG recognition residue [nucleotide binding]; other site 340322005889 putative reading head residues; other site 340322005890 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 340322005891 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 340322005892 ribonuclease III; Reviewed; Region: rnc; PRK00102 340322005893 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 340322005894 dimerization interface [polypeptide binding]; other site 340322005895 active site 340322005896 metal binding site [ion binding]; metal-binding site 340322005897 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 340322005898 dsRNA binding site [nucleotide binding]; other site 340322005899 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 340322005900 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 340322005901 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 340322005902 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322005903 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 340322005904 Walker A/P-loop; other site 340322005905 ATP binding site [chemical binding]; other site 340322005906 Q-loop/lid; other site 340322005907 ABC transporter signature motif; other site 340322005908 Walker B; other site 340322005909 D-loop; other site 340322005910 H-loop/switch region; other site 340322005911 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 340322005912 Walker A/P-loop; other site 340322005913 ATP binding site [chemical binding]; other site 340322005914 ABC transporter; Region: ABC_tran; pfam00005 340322005915 Q-loop/lid; other site 340322005916 ABC transporter signature motif; other site 340322005917 Walker B; other site 340322005918 D-loop; other site 340322005919 H-loop/switch region; other site 340322005920 glutamate dehydrogenase; Provisional; Region: PRK09414 340322005921 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 340322005922 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 340322005923 NAD(P) binding site [chemical binding]; other site 340322005924 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 340322005925 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 340322005926 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 340322005927 nucleotide binding site/active site [active] 340322005928 HIT family signature motif; other site 340322005929 catalytic residue [active] 340322005930 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322005931 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 340322005932 metal binding site [ion binding]; metal-binding site 340322005933 putative dimer interface [polypeptide binding]; other site 340322005934 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 340322005935 putative homodimer interface [polypeptide binding]; other site 340322005936 putative active site pocket [active] 340322005937 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 340322005938 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 340322005939 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 340322005940 putative metal binding site [ion binding]; other site 340322005941 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 340322005942 active site 340322005943 pyruvate kinase; Provisional; Region: PRK06247 340322005944 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 340322005945 domain interfaces; other site 340322005946 active site 340322005947 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 340322005948 Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]; Region: TrpC; COG0134 340322005949 phosphate binding site [ion binding]; other site 340322005950 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; pfam09534 340322005951 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 340322005952 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 340322005953 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 340322005954 substrate binding site [chemical binding]; other site 340322005955 glutamase interaction surface [polypeptide binding]; other site 340322005956 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 340322005957 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 340322005958 active site 340322005959 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 340322005960 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 340322005961 catalytic residues [active] 340322005962 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 340322005963 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 340322005964 putative active site [active] 340322005965 oxyanion strand; other site 340322005966 catalytic triad [active] 340322005967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322005968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322005969 putative substrate translocation pore; other site 340322005970 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 340322005971 putative active site pocket [active] 340322005972 4-fold oligomerization interface [polypeptide binding]; other site 340322005973 metal binding residues [ion binding]; metal-binding site 340322005974 3-fold/trimer interface [polypeptide binding]; other site 340322005975 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 340322005976 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 340322005977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322005978 homodimer interface [polypeptide binding]; other site 340322005979 catalytic residue [active] 340322005980 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 340322005981 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 340322005982 NAD binding site [chemical binding]; other site 340322005983 dimerization interface [polypeptide binding]; other site 340322005984 product binding site; other site 340322005985 substrate binding site [chemical binding]; other site 340322005986 zinc binding site [ion binding]; other site 340322005987 catalytic residues [active] 340322005988 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 340322005989 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 340322005990 tetracycline repressor protein TetR; Provisional; Region: PRK13756 340322005991 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322005992 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 340322005993 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 340322005994 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 340322005995 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 340322005996 active site 340322005997 catalytic site [active] 340322005998 Methyltransferase domain; Region: Methyltransf_23; pfam13489 340322005999 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 340322006000 S-adenosylmethionine binding site [chemical binding]; other site 340322006001 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 340322006002 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 340322006003 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322006004 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322006005 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322006006 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322006007 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322006008 DNA binding site [nucleotide binding] 340322006009 domain linker motif; other site 340322006010 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 340322006011 dimerization interface [polypeptide binding]; other site 340322006012 ligand binding site [chemical binding]; other site 340322006013 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322006014 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322006015 Walker A/P-loop; other site 340322006016 ATP binding site [chemical binding]; other site 340322006017 Q-loop/lid; other site 340322006018 ABC transporter signature motif; other site 340322006019 Walker B; other site 340322006020 D-loop; other site 340322006021 H-loop/switch region; other site 340322006022 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 340322006023 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 340322006024 ABC-ATPase subunit interface; other site 340322006025 dimer interface [polypeptide binding]; other site 340322006026 putative PBP binding regions; other site 340322006027 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322006028 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 340322006029 putative binding site residues; other site 340322006030 Predicted transcriptional regulators [Transcription]; Region: COG1733 340322006031 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 340322006032 dimerization interface [polypeptide binding]; other site 340322006033 putative DNA binding site [nucleotide binding]; other site 340322006034 putative Zn2+ binding site [ion binding]; other site 340322006035 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 340322006036 active site 340322006037 catalytic site [active] 340322006038 substrate binding site [chemical binding]; other site 340322006039 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 340322006040 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 340322006041 active site 340322006042 catalytic site [active] 340322006043 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340322006044 synthetase active site [active] 340322006045 NTP binding site [chemical binding]; other site 340322006046 metal binding site [ion binding]; metal-binding site 340322006047 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 340322006048 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322006049 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 340322006050 RNA binding surface [nucleotide binding]; other site 340322006051 Uncharacterized conserved protein [Function unknown]; Region: COG1739 340322006052 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 340322006053 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 340322006054 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 340322006055 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 340322006056 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 340322006057 catalytic site [active] 340322006058 active site 340322006059 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 340322006060 threonine dehydratase; Validated; Region: PRK08639 340322006061 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 340322006062 tetramer interface [polypeptide binding]; other site 340322006063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006064 catalytic residue [active] 340322006065 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 340322006066 putative Ile/Val binding site [chemical binding]; other site 340322006067 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 340322006068 substrate binding site [chemical binding]; other site 340322006069 THF binding site; other site 340322006070 zinc-binding site [ion binding]; other site 340322006071 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 340322006072 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 340322006073 active site 340322006074 PHP Thumb interface [polypeptide binding]; other site 340322006075 metal binding site [ion binding]; metal-binding site 340322006076 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 340322006077 generic binding surface II; other site 340322006078 generic binding surface I; other site 340322006079 Predicted permeases [General function prediction only]; Region: RarD; COG2962 340322006080 EamA-like transporter family; Region: EamA; cl17759 340322006081 EamA-like transporter family; Region: EamA; cl17759 340322006082 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 340322006083 Cation efflux family; Region: Cation_efflux; pfam01545 340322006084 oxidoreductase; Provisional; Region: PRK06128 340322006085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006086 NAD(P) binding site [chemical binding]; other site 340322006087 active site 340322006088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 340322006089 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 340322006090 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 340322006091 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA; Region: PLPDE_III_Y4yA_like; cd06842 340322006092 dimer interface [polypeptide binding]; other site 340322006093 active site 340322006094 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322006095 catalytic residues [active] 340322006096 substrate binding site [chemical binding]; other site 340322006097 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 340322006098 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 340322006099 dimer interface [polypeptide binding]; other site 340322006100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006101 catalytic residue [active] 340322006102 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 340322006103 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 340322006104 active site 340322006105 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 340322006106 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322006107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322006108 Walker A/P-loop; other site 340322006109 ATP binding site [chemical binding]; other site 340322006110 Q-loop/lid; other site 340322006111 ABC transporter signature motif; other site 340322006112 Walker B; other site 340322006113 D-loop; other site 340322006114 H-loop/switch region; other site 340322006115 ABC transporter; Region: ABC_tran_2; pfam12848 340322006116 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322006117 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 340322006118 active site 340322006119 homotetramer interface [polypeptide binding]; other site 340322006120 homodimer interface [polypeptide binding]; other site 340322006121 DNA polymerase IV; Provisional; Region: PRK03348 340322006122 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 340322006123 active site 340322006124 DNA binding site [nucleotide binding] 340322006125 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 340322006126 HEAT repeats; Region: HEAT_2; pfam13646 340322006127 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 340322006128 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 340322006129 DNA binding residues [nucleotide binding] 340322006130 putative dimer interface [polypeptide binding]; other site 340322006131 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 340322006132 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 340322006133 HIGH motif; other site 340322006134 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 340322006135 active site 340322006136 KMSKS motif; other site 340322006137 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 340322006138 tRNA binding surface [nucleotide binding]; other site 340322006139 anticodon binding site; other site 340322006140 DivIVA protein; Region: DivIVA; pfam05103 340322006141 DivIVA domain; Region: DivI1A_domain; TIGR03544 340322006142 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 340322006143 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 340322006144 Predicted integral membrane protein [Function unknown]; Region: COG0762 340322006145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 340322006146 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 340322006147 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322006148 catalytic residue [active] 340322006149 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 340322006150 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 340322006151 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 340322006152 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 340322006153 nucleotide binding site [chemical binding]; other site 340322006154 SulA interaction site; other site 340322006155 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 340322006156 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 340322006157 Cell division protein FtsQ; Region: FtsQ; pfam03799 340322006158 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 340322006159 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340322006160 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322006161 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322006162 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 340322006163 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 340322006164 active site 340322006165 homodimer interface [polypeptide binding]; other site 340322006166 cell division protein FtsW; Region: ftsW; TIGR02614 340322006167 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00141 340322006168 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322006169 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322006170 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 340322006171 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 340322006172 Mg++ binding site [ion binding]; other site 340322006173 putative catalytic motif [active] 340322006174 putative substrate binding site [chemical binding]; other site 340322006175 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 340322006176 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340322006177 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322006178 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322006179 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 340322006180 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340322006181 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322006182 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322006183 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 340322006184 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 340322006185 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 340322006186 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 340322006187 MraW methylase family; Region: Methyltransf_5; cl17771 340322006188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 340322006189 MraZ protein; Region: MraZ; pfam02381 340322006190 MraZ protein; Region: MraZ; pfam02381 340322006191 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 340322006192 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 340322006193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322006194 Coenzyme A binding pocket [chemical binding]; other site 340322006195 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 340322006196 FAD binding site [chemical binding]; other site 340322006197 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340322006198 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340322006199 substrate binding pocket [chemical binding]; other site 340322006200 chain length determination region; other site 340322006201 substrate-Mg2+ binding site; other site 340322006202 catalytic residues [active] 340322006203 aspartate-rich region 1; other site 340322006204 active site lid residues [active] 340322006205 aspartate-rich region 2; other site 340322006206 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 340322006207 Helix-turn-helix domain; Region: HTH_17; pfam12728 340322006208 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340322006209 Catalytic domain of Protein Kinases; Region: PKc; cd00180 340322006210 active site 340322006211 ATP binding site [chemical binding]; other site 340322006212 substrate binding site [chemical binding]; other site 340322006213 activation loop (A-loop); other site 340322006214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 340322006215 PASTA domain; Region: PASTA; pfam03793 340322006216 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 340322006217 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 340322006218 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 340322006219 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 340322006220 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 340322006221 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 340322006222 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 340322006223 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 340322006224 Predicted esterase [General function prediction only]; Region: COG0627 340322006225 Predicted membrane protein [Function unknown]; Region: COG4763 340322006226 Acyltransferase family; Region: Acyl_transf_3; pfam01757 340322006227 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 340322006228 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 340322006229 putative acyl-acceptor binding pocket; other site 340322006230 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 340322006231 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 340322006232 nucleotide binding site [chemical binding]; other site 340322006233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322006234 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 340322006235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 340322006236 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 340322006237 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 340322006238 NlpC/P60 family; Region: NLPC_P60; pfam00877 340322006239 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 340322006240 NlpC/P60 family; Region: NLPC_P60; pfam00877 340322006241 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 340322006242 heme bH binding site [chemical binding]; other site 340322006243 intrachain domain interface; other site 340322006244 heme bL binding site [chemical binding]; other site 340322006245 interchain domain interface [polypeptide binding]; other site 340322006246 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 340322006247 Qo binding site; other site 340322006248 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 340322006249 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 340322006250 iron-sulfur cluster [ion binding]; other site 340322006251 [2Fe-2S] cluster binding site [ion binding]; other site 340322006252 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 340322006253 Cytochrome c; Region: Cytochrom_C; pfam00034 340322006254 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 340322006255 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 340322006256 Subunit I/III interface [polypeptide binding]; other site 340322006257 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 340322006258 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 340322006259 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 340322006260 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 340322006261 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 340322006262 active site 340322006263 dimer interface [polypeptide binding]; other site 340322006264 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 340322006265 Ligand Binding Site [chemical binding]; other site 340322006266 Molecular Tunnel; other site 340322006267 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 340322006268 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 340322006269 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 340322006270 homotrimer interface [polypeptide binding]; other site 340322006271 Walker A motif; other site 340322006272 GTP binding site [chemical binding]; other site 340322006273 Walker B motif; other site 340322006274 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 340322006275 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 340322006276 putative dimer interface [polypeptide binding]; other site 340322006277 active site pocket [active] 340322006278 putative cataytic base [active] 340322006279 cobalamin synthase; Reviewed; Region: cobS; PRK00235 340322006280 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 340322006281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006282 NAD(P) binding site [chemical binding]; other site 340322006283 active site 340322006284 Branched-chain amino acid aminotransferase; Region: DUF3665; pfam12427 340322006285 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 340322006286 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 340322006287 homodimer interface [polypeptide binding]; other site 340322006288 substrate-cofactor binding pocket; other site 340322006289 catalytic residue [active] 340322006290 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 340322006291 multifunctional aminopeptidase A; Provisional; Region: PRK00913 340322006292 interface (dimer of trimers) [polypeptide binding]; other site 340322006293 Substrate-binding/catalytic site; other site 340322006294 Zn-binding sites [ion binding]; other site 340322006295 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 340322006296 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 340322006297 E3 interaction surface; other site 340322006298 lipoyl attachment site [posttranslational modification]; other site 340322006299 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 340322006300 E3 interaction surface; other site 340322006301 lipoyl attachment site [posttranslational modification]; other site 340322006302 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 340322006303 E3 interaction surface; other site 340322006304 lipoyl attachment site [posttranslational modification]; other site 340322006305 e3 binding domain; Region: E3_binding; pfam02817 340322006306 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 340322006307 lipoate-protein ligase B; Provisional; Region: PRK14345 340322006308 lipoyl synthase; Provisional; Region: PRK05481 340322006309 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 340322006310 FeS/SAM binding site; other site 340322006311 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 340322006312 Predicted permease [General function prediction only]; Region: COG2985 340322006313 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 340322006314 TrkA-C domain; Region: TrkA_C; pfam02080 340322006315 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 340322006316 RDD family; Region: RDD; pfam06271 340322006317 glutamine synthetase, type I; Region: GlnA; TIGR00653 340322006318 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 340322006319 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 340322006320 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 340322006321 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 340322006322 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322006323 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 340322006324 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 340322006325 homotrimer interaction site [polypeptide binding]; other site 340322006326 putative active site [active] 340322006327 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 340322006328 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 340322006329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006330 catalytic residue [active] 340322006331 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006332 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322006333 putative substrate translocation pore; other site 340322006334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006335 D-galactonate transporter; Region: 2A0114; TIGR00893 340322006336 putative substrate translocation pore; other site 340322006337 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 340322006338 heme binding pocket [chemical binding]; other site 340322006339 heme ligand [chemical binding]; other site 340322006340 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 340322006341 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322006342 metal binding triad; other site 340322006343 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 340322006344 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322006345 metal binding triad; other site 340322006346 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 340322006347 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 340322006348 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 340322006349 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 340322006350 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 340322006351 putative active site; other site 340322006352 putative metal binding residues [ion binding]; other site 340322006353 signature motif; other site 340322006354 putative triphosphate binding site [ion binding]; other site 340322006355 CHAD domain; Region: CHAD; pfam05235 340322006356 CHAD domain; Region: CHAD; pfam05235 340322006357 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 340322006358 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 340322006359 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 340322006360 RNB domain; Region: RNB; pfam00773 340322006361 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 340322006362 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 340322006363 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 340322006364 RNA/DNA hybrid binding site [nucleotide binding]; other site 340322006365 active site 340322006366 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 340322006367 catalytic core [active] 340322006368 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 340322006369 Putative zinc ribbon domain; Region: DUF164; pfam02591 340322006370 Uncharacterized conserved protein [Function unknown]; Region: COG0327 340322006371 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 340322006372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 340322006373 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 340322006374 Uncharacterized conserved protein [Function unknown]; Region: COG0327 340322006375 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 340322006376 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 340322006377 motif II; other site 340322006378 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 340322006379 Low molecular weight phosphatase family; Region: LMWPc; cd00115 340322006380 active site 340322006381 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 340322006382 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 340322006383 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 340322006384 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 340322006385 dimer interface [polypeptide binding]; other site 340322006386 TPP-binding site [chemical binding]; other site 340322006387 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 340322006388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322006389 Walker A/P-loop; other site 340322006390 ATP binding site [chemical binding]; other site 340322006391 Q-loop/lid; other site 340322006392 ABC transporter signature motif; other site 340322006393 Walker B; other site 340322006394 D-loop; other site 340322006395 H-loop/switch region; other site 340322006396 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 340322006397 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 340322006398 TM-ABC transporter signature motif; other site 340322006399 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 340322006400 zinc binding site [ion binding]; other site 340322006401 putative ligand binding site [chemical binding]; other site 340322006402 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322006403 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 340322006404 Serine hydrolase; Region: Ser_hydrolase; cl17834 340322006405 acyl carrier protein; Provisional; Region: acpP; PRK00982 340322006406 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 340322006407 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 340322006408 active site 340322006409 motif I; other site 340322006410 motif II; other site 340322006411 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 340322006412 Uncharacterized conserved protein [Function unknown]; Region: COG4850 340322006413 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 340322006414 Beta-lactamase; Region: Beta-lactamase; pfam00144 340322006415 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 340322006416 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 340322006417 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 340322006418 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 340322006419 putative active site [active] 340322006420 putative metal binding site [ion binding]; other site 340322006421 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322006422 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 340322006423 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 340322006424 DNA primase; Validated; Region: dnaG; PRK05667 340322006425 CHC2 zinc finger; Region: zf-CHC2; pfam01807 340322006426 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 340322006427 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 340322006428 active site 340322006429 metal binding site [ion binding]; metal-binding site 340322006430 interdomain interaction site; other site 340322006431 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 340322006432 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 340322006433 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 340322006434 active site 340322006435 barstar interaction site; other site 340322006436 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 340322006437 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 340322006438 glutaminase active site [active] 340322006439 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 340322006440 dimer interface [polypeptide binding]; other site 340322006441 active site 340322006442 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 340322006443 dimer interface [polypeptide binding]; other site 340322006444 active site 340322006445 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 340322006446 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 340322006447 Zn2+ binding site [ion binding]; other site 340322006448 Mg2+ binding site [ion binding]; other site 340322006449 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 340322006450 Uncharacterized conserved protein [Function unknown]; Region: COG1434 340322006451 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 340322006452 putative active site [active] 340322006453 Repair protein; Region: Repair_PSII; pfam04536 340322006454 glycyl-tRNA synthetase; Provisional; Region: PRK04173 340322006455 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 340322006456 motif 1; other site 340322006457 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 340322006458 active site 340322006459 motif 2; other site 340322006460 motif 3; other site 340322006461 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 340322006462 anticodon binding site; other site 340322006463 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 340322006464 dimerization interface [polypeptide binding]; other site 340322006465 putative DNA binding site [nucleotide binding]; other site 340322006466 putative Zn2+ binding site [ion binding]; other site 340322006467 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 340322006468 metal binding site 2 [ion binding]; metal-binding site 340322006469 putative DNA binding helix; other site 340322006470 metal binding site 1 [ion binding]; metal-binding site 340322006471 dimer interface [polypeptide binding]; other site 340322006472 structural Zn2+ binding site [ion binding]; other site 340322006473 Domain of unknown function (DUF222); Region: DUF222; pfam02720 340322006474 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 340322006475 active site 340322006476 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 340322006477 diiron binding motif [ion binding]; other site 340322006478 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 340322006479 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 340322006480 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 340322006481 catalytic residue [active] 340322006482 putative FPP diphosphate binding site; other site 340322006483 putative FPP binding hydrophobic cleft; other site 340322006484 dimer interface [polypeptide binding]; other site 340322006485 putative IPP diphosphate binding site; other site 340322006486 Recombination protein O N terminal; Region: RecO_N; pfam11967 340322006487 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 340322006488 Recombination protein O C terminal; Region: RecO_C; pfam02565 340322006489 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 340322006490 GTPase Era; Reviewed; Region: era; PRK00089 340322006491 G5 box; other site 340322006492 KH domain; Region: KH_2; pfam07650 340322006493 GTPase Era; Reviewed; Region: era; PRK00089 340322006494 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 340322006495 G1 box; other site 340322006496 GTP/Mg2+ binding site [chemical binding]; other site 340322006497 Switch I region; other site 340322006498 G2 box; other site 340322006499 Switch II region; other site 340322006500 G3 box; other site 340322006501 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322006502 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322006503 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 340322006504 Transporter associated domain; Region: CorC_HlyC; smart01091 340322006505 metal-binding heat shock protein; Provisional; Region: PRK00016 340322006506 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 340322006507 PhoH-like protein; Region: PhoH; pfam02562 340322006508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 340322006509 RNA methyltransferase, RsmE family; Region: TIGR00046 340322006510 chaperone protein DnaJ; Provisional; Region: PRK14278 340322006511 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 340322006512 HSP70 interaction site [polypeptide binding]; other site 340322006513 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 340322006514 Zn binding sites [ion binding]; other site 340322006515 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 340322006516 dimer interface [polypeptide binding]; other site 340322006517 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 340322006518 coproporphyrinogen III oxidase; Validated; Region: PRK05628 340322006519 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 340322006520 FeS/SAM binding site; other site 340322006521 HemN C-terminal domain; Region: HemN_C; pfam06969 340322006522 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 340322006523 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 340322006524 acyl-activating enzyme (AAE) consensus motif; other site 340322006525 putative AMP binding site [chemical binding]; other site 340322006526 putative active site [active] 340322006527 putative CoA binding site [chemical binding]; other site 340322006528 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 340322006529 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 340322006530 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 340322006531 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 340322006532 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 340322006533 Walker A/P-loop; other site 340322006534 ATP binding site [chemical binding]; other site 340322006535 Q-loop/lid; other site 340322006536 ABC transporter signature motif; other site 340322006537 Walker B; other site 340322006538 D-loop; other site 340322006539 H-loop/switch region; other site 340322006540 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 340322006541 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 340322006542 active site 340322006543 Zn binding site [ion binding]; other site 340322006544 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 340322006545 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 340322006546 substrate binding pocket [chemical binding]; other site 340322006547 catalytic triad [active] 340322006548 trehalose synthase; Region: treS_nterm; TIGR02456 340322006549 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 340322006550 active site 340322006551 catalytic site [active] 340322006552 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 340322006553 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 340322006554 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 340322006555 active site 340322006556 metal binding site [ion binding]; metal-binding site 340322006557 nudix motif; other site 340322006558 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 340322006559 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 340322006560 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 340322006561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006562 homodimer interface [polypeptide binding]; other site 340322006563 catalytic residue [active] 340322006564 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 340322006565 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 340322006566 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322006567 choline/carnitine/betaine transport; Region: bcct; TIGR00842 340322006568 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 340322006569 catalytic Zn binding site [ion binding]; other site 340322006570 putative phosphonate catabolism associated alcohol dehydrogenase; Region: HpnZ_proposed; TIGR03366 340322006571 structural Zn binding site [ion binding]; other site 340322006572 tetramer interface [polypeptide binding]; other site 340322006573 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 340322006574 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 340322006575 motif II; other site 340322006576 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322006577 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322006578 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322006579 dimer interface [polypeptide binding]; other site 340322006580 conserved gate region; other site 340322006581 ABC-ATPase subunit interface; other site 340322006582 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 340322006583 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 340322006584 Q-loop/lid; other site 340322006585 ABC transporter signature motif; other site 340322006586 Walker B; other site 340322006587 D-loop; other site 340322006588 H-loop/switch region; other site 340322006589 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 340322006590 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 340322006591 substrate binding pocket [chemical binding]; other site 340322006592 membrane-bound complex binding site; other site 340322006593 hinge residues; other site 340322006594 hydroxyglutarate oxidase; Provisional; Region: PRK11728 340322006595 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 340322006596 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 340322006597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322006598 DNA-binding site [nucleotide binding]; DNA binding site 340322006599 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 340322006600 Predicted permeases [General function prediction only]; Region: COG0679 340322006601 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340322006602 FAD binding domain; Region: FAD_binding_4; pfam01565 340322006603 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 340322006604 Transcriptional regulators [Transcription]; Region: GntR; COG1802 340322006605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322006606 DNA-binding site [nucleotide binding]; DNA binding site 340322006607 FCD domain; Region: FCD; pfam07729 340322006608 DctM-like transporters; Region: DctM; pfam06808 340322006609 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 340322006610 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 340322006611 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 340322006612 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322006613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322006614 dimer interface [polypeptide binding]; other site 340322006615 conserved gate region; other site 340322006616 putative PBP binding loops; other site 340322006617 ABC-ATPase subunit interface; other site 340322006618 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 340322006619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322006620 dimer interface [polypeptide binding]; other site 340322006621 conserved gate region; other site 340322006622 putative PBP binding loops; other site 340322006623 ABC-ATPase subunit interface; other site 340322006624 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 340322006625 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322006626 Walker A/P-loop; other site 340322006627 ATP binding site [chemical binding]; other site 340322006628 Q-loop/lid; other site 340322006629 ABC transporter signature motif; other site 340322006630 Walker B; other site 340322006631 D-loop; other site 340322006632 H-loop/switch region; other site 340322006633 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322006634 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322006635 Walker A/P-loop; other site 340322006636 ATP binding site [chemical binding]; other site 340322006637 Q-loop/lid; other site 340322006638 ABC transporter signature motif; other site 340322006639 Walker B; other site 340322006640 D-loop; other site 340322006641 H-loop/switch region; other site 340322006642 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322006643 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 340322006644 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 340322006645 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 340322006646 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 340322006647 substrate binding site [chemical binding]; other site 340322006648 dimer interface [polypeptide binding]; other site 340322006649 ATP binding site [chemical binding]; other site 340322006650 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 340322006651 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 340322006652 bile acid transporter; Region: bass; TIGR00841 340322006653 Sodium Bile acid symporter family; Region: SBF; pfam01758 340322006654 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 340322006655 active site 340322006656 phosphate binding residues; other site 340322006657 catalytic residues [active] 340322006658 malate synthase G; Provisional; Region: PRK02999 340322006659 active site 340322006660 isocitrate lyase; Provisional; Region: PRK15063 340322006661 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 340322006662 tetramer interface [polypeptide binding]; other site 340322006663 active site 340322006664 Mg2+/Mn2+ binding site [ion binding]; other site 340322006665 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 340322006666 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322006667 putative active site [active] 340322006668 putative metal binding site [ion binding]; other site 340322006669 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 340322006670 Lamin Tail Domain; Region: LTD; pfam00932 340322006671 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 340322006672 DctM-like transporters; Region: DctM; pfam06808 340322006673 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 340322006674 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 340322006675 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 340322006676 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 340322006677 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 340322006678 PemK-like protein; Region: PemK; pfam02452 340322006679 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 340322006680 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 340322006681 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 340322006682 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 340322006683 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 340322006684 hypothetical protein; Validated; Region: PRK05629 340322006685 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 340322006686 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 340322006687 Competence protein; Region: Competence; pfam03772 340322006688 SLBB domain; Region: SLBB; pfam10531 340322006689 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 340322006690 Helix-hairpin-helix motif; Region: HHH; pfam00633 340322006691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 340322006692 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 340322006693 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 340322006694 catalytic core [active] 340322006695 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 340322006696 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 340322006697 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 340322006698 active site 340322006699 (T/H)XGH motif; other site 340322006700 Cutinase; Region: Cutinase; pfam01083 340322006701 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 340322006702 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 340322006703 putative catalytic cysteine [active] 340322006704 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 340322006705 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 340322006706 putative ligand binding site [chemical binding]; other site 340322006707 putative NAD binding site [chemical binding]; other site 340322006708 catalytic site [active] 340322006709 glutamate 5-kinase; Region: proB; TIGR01027 340322006710 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 340322006711 nucleotide binding site [chemical binding]; other site 340322006712 homotetrameric interface [polypeptide binding]; other site 340322006713 putative phosphate binding site [ion binding]; other site 340322006714 putative allosteric binding site; other site 340322006715 PUA domain; Region: PUA; pfam01472 340322006716 GTPase CgtA; Reviewed; Region: obgE; PRK12296 340322006717 GTP1/OBG; Region: GTP1_OBG; pfam01018 340322006718 Obg GTPase; Region: Obg; cd01898 340322006719 G1 box; other site 340322006720 GTP/Mg2+ binding site [chemical binding]; other site 340322006721 Switch I region; other site 340322006722 G2 box; other site 340322006723 G3 box; other site 340322006724 Switch II region; other site 340322006725 G4 box; other site 340322006726 G5 box; other site 340322006727 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 340322006728 xanthine permease; Region: pbuX; TIGR03173 340322006729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 340322006730 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 340322006731 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322006732 active site 340322006733 catalytic tetrad [active] 340322006734 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 340322006735 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 340322006736 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 340322006737 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 340322006738 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340322006739 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 340322006740 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 340322006741 homodimer interface [polypeptide binding]; other site 340322006742 oligonucleotide binding site [chemical binding]; other site 340322006743 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 340322006744 Pirin-related protein [General function prediction only]; Region: COG1741 340322006745 Pirin; Region: Pirin; pfam02678 340322006746 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 340322006747 Uncharacterized conserved protein [Function unknown]; Region: COG2128 340322006748 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 340322006749 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 340322006750 active site 340322006751 multimer interface [polypeptide binding]; other site 340322006752 Predicted acetyltransferase [General function prediction only]; Region: COG2388 340322006753 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 340322006754 hydrophobic ligand binding site; other site 340322006755 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 340322006756 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 340322006757 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322006758 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 340322006759 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322006760 active site 340322006761 HIGH motif; other site 340322006762 nucleotide binding site [chemical binding]; other site 340322006763 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 340322006764 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 340322006765 active site 340322006766 KMSKS motif; other site 340322006767 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 340322006768 tRNA binding surface [nucleotide binding]; other site 340322006769 anticodon binding site; other site 340322006770 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 340322006771 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 340322006772 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 340322006773 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 340322006774 Actin-like ATPase involved in cell morphogenesis [Cell division and chromosome partitioning]; Region: MreB; COG1077 340322006775 nucleotide binding site [chemical binding]; other site 340322006776 putative NEF/HSP70 interaction site [polypeptide binding]; other site 340322006777 SBD interface [polypeptide binding]; other site 340322006778 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 340322006779 malate dehydrogenase; Provisional; Region: PRK05442 340322006780 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 340322006781 NAD(P) binding site [chemical binding]; other site 340322006782 dimer interface [polypeptide binding]; other site 340322006783 malate binding site [chemical binding]; other site 340322006784 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322006785 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322006786 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 340322006787 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 340322006788 iron-sulfur cluster [ion binding]; other site 340322006789 [2Fe-2S] cluster binding site [ion binding]; other site 340322006790 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 340322006791 alpha subunit interface [polypeptide binding]; other site 340322006792 active site 340322006793 substrate binding site [chemical binding]; other site 340322006794 Fe binding site [ion binding]; other site 340322006795 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 340322006796 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 340322006797 FMN-binding pocket [chemical binding]; other site 340322006798 flavin binding motif; other site 340322006799 phosphate binding motif [ion binding]; other site 340322006800 beta-alpha-beta structure motif; other site 340322006801 NAD binding pocket [chemical binding]; other site 340322006802 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 340322006803 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 340322006804 catalytic loop [active] 340322006805 iron binding site [ion binding]; other site 340322006806 benzoate transport; Region: 2A0115; TIGR00895 340322006807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006808 putative substrate translocation pore; other site 340322006809 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006810 Predicted permeases [General function prediction only]; Region: COG0679 340322006811 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 340322006812 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 340322006813 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 340322006814 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 340322006815 Walker A motif; other site 340322006816 ATP binding site [chemical binding]; other site 340322006817 Walker B motif; other site 340322006818 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 340322006819 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 340322006820 active site 340322006821 catalytic triad [active] 340322006822 oxyanion hole [active] 340322006823 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 340322006824 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 340322006825 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 340322006826 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 340322006827 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322006828 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 340322006829 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 340322006830 dimer interface [polypeptide binding]; other site 340322006831 active site 340322006832 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 340322006833 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322006834 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 340322006835 DNA binding residues [nucleotide binding] 340322006836 dimerization interface [polypeptide binding]; other site 340322006837 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 340322006838 3-carboxy-cis,cis-muconate cycloisomerase; Region: protocat_pcaB; TIGR02426 340322006839 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 340322006840 tetramer interface [polypeptide binding]; other site 340322006841 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 340322006842 protocatechuate 3,4-dioxygenase, alpha subunit; Region: protocat_alph; TIGR02423 340322006843 active site 340322006844 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 340322006845 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 340322006846 active site 340322006847 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 340322006848 active site 340322006849 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CatC1; COG4829 340322006850 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 340322006851 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 340322006852 metal binding site [ion binding]; metal-binding site 340322006853 substrate binding pocket [chemical binding]; other site 340322006854 catechol 1,2-dioxygenase, Actinobacterial; Region: catachol_actin; TIGR02438 340322006855 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 340322006856 active site 340322006857 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 340322006858 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 340322006859 iron-sulfur cluster [ion binding]; other site 340322006860 [2Fe-2S] cluster binding site [ion binding]; other site 340322006861 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 340322006862 putative alpha subunit interface [polypeptide binding]; other site 340322006863 putative active site [active] 340322006864 putative substrate binding site [chemical binding]; other site 340322006865 Fe binding site [ion binding]; other site 340322006866 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 340322006867 inter-subunit interface; other site 340322006868 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 340322006869 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 340322006870 catalytic loop [active] 340322006871 iron binding site [ion binding]; other site 340322006872 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 340322006873 FAD binding pocket [chemical binding]; other site 340322006874 FAD binding motif [chemical binding]; other site 340322006875 phosphate binding motif [ion binding]; other site 340322006876 beta-alpha-beta structure motif; other site 340322006877 NAD binding pocket [chemical binding]; other site 340322006878 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322006879 FCD domain; Region: FCD; pfam07729 340322006880 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 340322006881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006882 NAD(P) binding site [chemical binding]; other site 340322006883 active site 340322006884 AAA ATPase domain; Region: AAA_16; pfam13191 340322006885 AAA domain; Region: AAA_22; pfam13401 340322006886 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322006887 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 340322006888 DNA binding residues [nucleotide binding] 340322006889 dimerization interface [polypeptide binding]; other site 340322006890 benzoate transport; Region: 2A0115; TIGR00895 340322006891 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006892 putative substrate translocation pore; other site 340322006893 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006894 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 340322006895 benzoate transporter; Region: benE; TIGR00843 340322006896 PAS domain; Region: PAS; smart00091 340322006897 PAS domain; Region: PAS_9; pfam13426 340322006898 putative active site [active] 340322006899 heme pocket [chemical binding]; other site 340322006900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322006901 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 340322006902 dimer interface [polypeptide binding]; other site 340322006903 phosphorylation site [posttranslational modification] 340322006904 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 340322006905 ATP binding site [chemical binding]; other site 340322006906 Mg2+ binding site [ion binding]; other site 340322006907 G-X-G motif; other site 340322006908 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 340322006909 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 340322006910 active site 340322006911 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 340322006912 [2Fe-2S] cluster binding site [ion binding]; other site 340322006913 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 340322006914 putative alpha subunit interface [polypeptide binding]; other site 340322006915 putative active site [active] 340322006916 putative substrate binding site [chemical binding]; other site 340322006917 Fe binding site [ion binding]; other site 340322006918 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 340322006919 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322006920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006921 NAD(P) binding site [chemical binding]; other site 340322006922 active site 340322006923 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 340322006924 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 340322006925 FMN-binding pocket [chemical binding]; other site 340322006926 flavin binding motif; other site 340322006927 phosphate binding motif [ion binding]; other site 340322006928 beta-alpha-beta structure motif; other site 340322006929 NAD binding pocket [chemical binding]; other site 340322006930 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 340322006931 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 340322006932 catalytic loop [active] 340322006933 iron binding site [ion binding]; other site 340322006934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322006935 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 340322006936 active site 340322006937 phosphorylation site [posttranslational modification] 340322006938 intermolecular recognition site; other site 340322006939 dimerization interface [polypeptide binding]; other site 340322006940 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 340322006941 DNA binding residues [nucleotide binding] 340322006942 dimerization interface [polypeptide binding]; other site 340322006943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006944 putative substrate translocation pore; other site 340322006945 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322006946 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 340322006947 SnoaL-like domain; Region: SnoaL_4; pfam13577 340322006948 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 340322006949 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 340322006950 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 340322006951 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 340322006952 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 340322006953 oligomer interface [polypeptide binding]; other site 340322006954 active site residues [active] 340322006955 Clp protease; Region: CLP_protease; pfam00574 340322006956 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 340322006957 oligomer interface [polypeptide binding]; other site 340322006958 active site residues [active] 340322006959 trigger factor; Provisional; Region: tig; PRK01490 340322006960 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 340322006961 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 340322006962 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 340322006963 dimerization interface [polypeptide binding]; other site 340322006964 putative DNA binding site [nucleotide binding]; other site 340322006965 putative Zn2+ binding site [ion binding]; other site 340322006966 Beta-lactamase; Region: Beta-lactamase; pfam00144 340322006967 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 340322006968 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 340322006969 MULE transposase domain; Region: MULE; pfam10551 340322006970 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 340322006971 Protein of unknown function (DUF418); Region: DUF418; pfam04235 340322006972 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 340322006973 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322006974 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 340322006975 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 340322006976 Zn binding site [ion binding]; other site 340322006977 HTH-like domain; Region: HTH_21; pfam13276 340322006978 Integrase core domain; Region: rve; pfam00665 340322006979 Integrase core domain; Region: rve_3; pfam13683 340322006980 Transposase; Region: HTH_Tnp_1; cl17663 340322006981 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322006982 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 340322006983 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006984 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322006985 putative substrate translocation pore; other site 340322006986 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322006987 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322006988 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 340322006989 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 340322006990 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 340322006991 catalytic Zn binding site [ion binding]; other site 340322006992 NAD binding site [chemical binding]; other site 340322006993 structural Zn binding site [ion binding]; other site 340322006994 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 340322006995 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322006996 NAD(P) binding site [chemical binding]; other site 340322006997 catalytic residues [active] 340322006998 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 1, classical (c) SDR; Region: BKR_1_SDR_c; cd05337 340322006999 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 340322007000 putative NAD(P) binding site [chemical binding]; other site 340322007001 active site 340322007002 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 340322007003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322007004 NAD(P) binding site [chemical binding]; other site 340322007005 active site 340322007006 Putative cyclase; Region: Cyclase; pfam04199 340322007007 phytoene desaturase; Region: crtI_fam; TIGR02734 340322007008 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007009 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322007010 putative substrate translocation pore; other site 340322007011 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 340322007012 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 340322007013 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 340322007014 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 340322007015 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322007016 Walker A/P-loop; other site 340322007017 ATP binding site [chemical binding]; other site 340322007018 Q-loop/lid; other site 340322007019 ABC transporter signature motif; other site 340322007020 Walker B; other site 340322007021 D-loop; other site 340322007022 H-loop/switch region; other site 340322007023 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322007024 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322007025 Walker A/P-loop; other site 340322007026 ATP binding site [chemical binding]; other site 340322007027 Q-loop/lid; other site 340322007028 ABC transporter signature motif; other site 340322007029 Walker B; other site 340322007030 D-loop; other site 340322007031 H-loop/switch region; other site 340322007032 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322007033 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 340322007034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007035 putative PBP binding loops; other site 340322007036 dimer interface [polypeptide binding]; other site 340322007037 ABC-ATPase subunit interface; other site 340322007038 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322007039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007040 dimer interface [polypeptide binding]; other site 340322007041 conserved gate region; other site 340322007042 putative PBP binding loops; other site 340322007043 ABC-ATPase subunit interface; other site 340322007044 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 340322007045 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 340322007046 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 340322007047 hypothetical protein; Provisional; Region: PRK06062 340322007048 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 340322007049 inhibitor-cofactor binding pocket; inhibition site 340322007050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007051 catalytic residue [active] 340322007052 Domain of unknown function (DUF222); Region: DUF222; pfam02720 340322007053 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 340322007054 active site 340322007055 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340322007056 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 340322007057 short chain dehydrogenase; Provisional; Region: PRK08219 340322007058 HetN oxidoreductase-like, classical (c) SDR; Region: HetN_like_SDR_c; cd08932 340322007059 putative NAD(P) binding site [chemical binding]; other site 340322007060 active site 340322007061 tetracycline repressor protein TetR; Provisional; Region: PRK13756 340322007062 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322007063 cystathionine gamma-synthase; Provisional; Region: PRK07811 340322007064 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 340322007065 homodimer interface [polypeptide binding]; other site 340322007066 substrate-cofactor binding pocket; other site 340322007067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007068 catalytic residue [active] 340322007069 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 340322007070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322007071 Walker A/P-loop; other site 340322007072 ATP binding site [chemical binding]; other site 340322007073 Q-loop/lid; other site 340322007074 ABC transporter signature motif; other site 340322007075 Walker B; other site 340322007076 D-loop; other site 340322007077 H-loop/switch region; other site 340322007078 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 340322007079 Mechanosensitive ion channel; Region: MS_channel; pfam00924 340322007080 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 340322007081 apolar tunnel; other site 340322007082 heme binding site [chemical binding]; other site 340322007083 dimerization interface [polypeptide binding]; other site 340322007084 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 340322007085 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 340322007086 Chromate transporter; Region: Chromate_transp; pfam02417 340322007087 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 340322007088 active site 340322007089 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 340322007090 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 340322007091 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 340322007092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322007093 Walker A/P-loop; other site 340322007094 ATP binding site [chemical binding]; other site 340322007095 Q-loop/lid; other site 340322007096 ABC transporter signature motif; other site 340322007097 Walker B; other site 340322007098 D-loop; other site 340322007099 H-loop/switch region; other site 340322007100 ABC transporter; Region: ABC_tran_2; pfam12848 340322007101 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 340322007102 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 340322007103 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 340322007104 dimer interface [polypeptide binding]; other site 340322007105 ssDNA binding site [nucleotide binding]; other site 340322007106 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322007107 Copper resistance protein D; Region: CopD; pfam05425 340322007108 Predicted membrane protein [Function unknown]; Region: COG3336 340322007109 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 340322007110 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 340322007111 active site 340322007112 dimer interface [polypeptide binding]; other site 340322007113 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 340322007114 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322007115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007116 dimer interface [polypeptide binding]; other site 340322007117 conserved gate region; other site 340322007118 putative PBP binding loops; other site 340322007119 ABC-ATPase subunit interface; other site 340322007120 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007121 dimer interface [polypeptide binding]; other site 340322007122 conserved gate region; other site 340322007123 putative PBP binding loops; other site 340322007124 ABC-ATPase subunit interface; other site 340322007125 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 340322007126 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 340322007127 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 340322007128 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 340322007129 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 340322007130 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322007131 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 340322007132 Walker A/P-loop; other site 340322007133 ATP binding site [chemical binding]; other site 340322007134 Q-loop/lid; other site 340322007135 ABC transporter signature motif; other site 340322007136 Walker B; other site 340322007137 D-loop; other site 340322007138 H-loop/switch region; other site 340322007139 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 340322007140 catalytic residues [active] 340322007141 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 340322007142 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 340322007143 catalytic Zn binding site [ion binding]; other site 340322007144 NAD binding site [chemical binding]; other site 340322007145 structural Zn binding site [ion binding]; other site 340322007146 Isochorismatase family; Region: Isochorismatase; pfam00857 340322007147 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 340322007148 catalytic triad [active] 340322007149 conserved cis-peptide bond; other site 340322007150 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 340322007151 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322007152 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 340322007153 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 340322007154 CGNR zinc finger; Region: zf-CGNR; pfam11706 340322007155 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 340322007156 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 340322007157 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 340322007158 Ligand Binding Site [chemical binding]; other site 340322007159 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 340322007160 AIR carboxylase; Region: AIRC; smart01001 340322007161 Uncharacterized conserved protein [Function unknown]; Region: COG1641 340322007162 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 340322007163 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 340322007164 classical (c) SDRs; Region: SDR_c; cd05233 340322007165 NAD(P) binding site [chemical binding]; other site 340322007166 active site 340322007167 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 340322007168 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 340322007169 catalytic site [active] 340322007170 putative active site [active] 340322007171 putative substrate binding site [chemical binding]; other site 340322007172 dimer interface [polypeptide binding]; other site 340322007173 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 340322007174 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 340322007175 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 340322007176 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 340322007177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 340322007178 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 340322007179 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 340322007180 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 340322007181 BCCT family transporter; Region: BCCT; cl00569 340322007182 SdpI/YhfL protein family; Region: SdpI; pfam13630 340322007183 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 340322007184 glutaminase; Provisional; Region: PRK00971 340322007185 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 340322007186 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322007187 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322007188 DNA binding site [nucleotide binding] 340322007189 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 340322007190 dimerization interface [polypeptide binding]; other site 340322007191 ligand binding site [chemical binding]; other site 340322007192 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322007193 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322007194 DNA binding site [nucleotide binding] 340322007195 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 340322007196 dimerization interface [polypeptide binding]; other site 340322007197 ligand binding site [chemical binding]; other site 340322007198 glucuronate isomerase; Reviewed; Region: PRK02925 340322007199 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 340322007200 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 340322007201 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 340322007202 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 340322007203 glucuronide transporter; Provisional; Region: PRK09848 340322007204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007205 putative substrate translocation pore; other site 340322007206 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 340322007207 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 340322007208 ATP-binding site [chemical binding]; other site 340322007209 Gluconate-6-phosphate binding site [chemical binding]; other site 340322007210 Shikimate kinase; Region: SKI; pfam01202 340322007211 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 340322007212 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 340322007213 active site 340322007214 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 340322007215 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 340322007216 active site 340322007217 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 340322007218 Isochorismatase family; Region: Isochorismatase; pfam00857 340322007219 catalytic triad [active] 340322007220 metal binding site [ion binding]; metal-binding site 340322007221 conserved cis-peptide bond; other site 340322007222 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 340322007223 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 340322007224 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 340322007225 catalytic triad [active] 340322007226 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322007227 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322007228 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 340322007229 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 340322007230 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007231 putative substrate translocation pore; other site 340322007232 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 340322007233 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 340322007234 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 340322007235 phosphate binding site [ion binding]; other site 340322007236 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 340322007237 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 340322007238 active site 2 [active] 340322007239 active site 1 [active] 340322007240 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 340322007241 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 340322007242 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 340322007243 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 340322007244 putative NAD(P) binding site [chemical binding]; other site 340322007245 active site 340322007246 "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 340322007247 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 340322007248 active site 340322007249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322007250 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 340322007251 NAD(P) binding site [chemical binding]; other site 340322007252 active site 340322007253 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 340322007254 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 340322007255 Glucitol operon activator [Transcription]; Region: GutM; COG4578 340322007256 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 340322007257 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 340322007258 active site 340322007259 dimerization interface [polypeptide binding]; other site 340322007260 ribonuclease PH; Reviewed; Region: rph; PRK00173 340322007261 Ribonuclease PH; Region: RNase_PH_bact; cd11362 340322007262 hexamer interface [polypeptide binding]; other site 340322007263 active site 340322007264 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 340322007265 glutamate racemase; Provisional; Region: PRK00865 340322007266 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 340322007267 MarR family; Region: MarR; pfam01047 340322007268 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 340322007269 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 340322007270 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 340322007271 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 340322007272 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 340322007273 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 340322007274 active site 340322007275 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 340322007276 DEAD/DEAH box helicase; Region: DEAD; pfam00270 340322007277 DEAD_2; Region: DEAD_2; pfam06733 340322007278 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 340322007279 Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]; Region: pth2; COG1990 340322007280 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 340322007281 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 340322007282 D-pathway; other site 340322007283 Putative ubiquinol binding site [chemical binding]; other site 340322007284 Low-spin heme (heme b) binding site [chemical binding]; other site 340322007285 Putative water exit pathway; other site 340322007286 Binuclear center (heme o3/CuB) [ion binding]; other site 340322007287 K-pathway; other site 340322007288 Putative proton exit pathway; other site 340322007289 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 340322007290 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 340322007291 dimer interface [polypeptide binding]; other site 340322007292 putative radical transfer pathway; other site 340322007293 diiron center [ion binding]; other site 340322007294 tyrosyl radical; other site 340322007295 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 340322007296 Ferritin-like domain; Region: Ferritin; pfam00210 340322007297 ferroxidase diiron center [ion binding]; other site 340322007298 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322007299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007300 DNA-binding site [nucleotide binding]; DNA binding site 340322007301 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 340322007302 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 340322007303 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 340322007304 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322007305 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 340322007306 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 340322007307 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 340322007308 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 340322007309 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 340322007310 Class I ribonucleotide reductase; Region: RNR_I; cd01679 340322007311 active site 340322007312 dimer interface [polypeptide binding]; other site 340322007313 catalytic residues [active] 340322007314 effector binding site; other site 340322007315 R2 peptide binding site; other site 340322007316 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 340322007317 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 340322007318 catalytic residues [active] 340322007319 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 340322007320 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 340322007321 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 340322007322 homodimer interface [polypeptide binding]; other site 340322007323 NAD binding pocket [chemical binding]; other site 340322007324 ATP binding pocket [chemical binding]; other site 340322007325 Mg binding site [ion binding]; other site 340322007326 active-site loop [active] 340322007327 Fructosamine kinase; Region: Fructosamin_kin; cl17579 340322007328 Phosphotransferase enzyme family; Region: APH; pfam01636 340322007329 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 340322007330 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 340322007331 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 340322007332 NADP binding site [chemical binding]; other site 340322007333 dimer interface [polypeptide binding]; other site 340322007334 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 340322007335 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 340322007336 catalytic residues [active] 340322007337 phosphoglucomutase; Validated; Region: PRK07564 340322007338 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 340322007339 active site 340322007340 substrate binding site [chemical binding]; other site 340322007341 metal binding site [ion binding]; metal-binding site 340322007342 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK00134 340322007343 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 340322007344 hypothetical protein; Provisional; Region: PRK05463 340322007345 Predicted membrane protein [General function prediction only]; Region: COG4194 340322007346 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 340322007347 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 340322007348 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 340322007349 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340322007350 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340322007351 FtsX-like permease family; Region: FtsX; pfam02687 340322007352 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340322007353 FtsX-like permease family; Region: FtsX; pfam02687 340322007354 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 340322007355 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322007356 Walker A/P-loop; other site 340322007357 ATP binding site [chemical binding]; other site 340322007358 Q-loop/lid; other site 340322007359 ABC transporter signature motif; other site 340322007360 Walker B; other site 340322007361 D-loop; other site 340322007362 H-loop/switch region; other site 340322007363 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 340322007364 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322007365 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322007366 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322007367 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322007368 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322007369 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322007370 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 340322007371 MFS/sugar transport protein; Region: MFS_2; pfam13347 340322007372 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 340322007373 Methyltransferase domain; Region: Methyltransf_23; pfam13489 340322007374 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 340322007375 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 340322007376 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 340322007377 hinge; other site 340322007378 active site 340322007379 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 340322007380 GAF domain; Region: GAF_2; pfam13185 340322007381 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322007382 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 340322007383 DNA binding residues [nucleotide binding] 340322007384 dimerization interface [polypeptide binding]; other site 340322007385 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 340322007386 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 340322007387 dimer interface [polypeptide binding]; other site 340322007388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007389 catalytic residue [active] 340322007390 serine O-acetyltransferase; Region: cysE; TIGR01172 340322007391 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 340322007392 trimer interface [polypeptide binding]; other site 340322007393 active site 340322007394 substrate binding site [chemical binding]; other site 340322007395 CoA binding site [chemical binding]; other site 340322007396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322007397 Coenzyme A binding pocket [chemical binding]; other site 340322007398 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 340322007399 CoA binding domain; Region: CoA_binding; smart00881 340322007400 CoA-ligase; Region: Ligase_CoA; pfam00549 340322007401 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 340322007402 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 340322007403 CoA-ligase; Region: Ligase_CoA; pfam00549 340322007404 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 340322007405 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 340322007406 catalytic residues [active] 340322007407 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 340322007408 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 340322007409 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 340322007410 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 340322007411 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 340322007412 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 340322007413 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 340322007414 FMN binding site [chemical binding]; other site 340322007415 active site 340322007416 catalytic residues [active] 340322007417 substrate binding site [chemical binding]; other site 340322007418 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 340322007419 PhoU domain; Region: PhoU; pfam01895 340322007420 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 340322007421 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 340322007422 Walker A/P-loop; other site 340322007423 ATP binding site [chemical binding]; other site 340322007424 Q-loop/lid; other site 340322007425 ABC transporter signature motif; other site 340322007426 Walker B; other site 340322007427 D-loop; other site 340322007428 H-loop/switch region; other site 340322007429 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 340322007430 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007431 dimer interface [polypeptide binding]; other site 340322007432 conserved gate region; other site 340322007433 putative PBP binding loops; other site 340322007434 ABC-ATPase subunit interface; other site 340322007435 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 340322007436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007437 dimer interface [polypeptide binding]; other site 340322007438 conserved gate region; other site 340322007439 putative PBP binding loops; other site 340322007440 ABC-ATPase subunit interface; other site 340322007441 PBP superfamily domain; Region: PBP_like_2; cl17296 340322007442 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 340322007443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322007444 Coenzyme A binding pocket [chemical binding]; other site 340322007445 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322007446 Coenzyme A binding pocket [chemical binding]; other site 340322007447 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 340322007448 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 340322007449 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 340322007450 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 340322007451 heme-binding site [chemical binding]; other site 340322007452 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 340322007453 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 340322007454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007455 catalytic residue [active] 340322007456 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 340322007457 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 340322007458 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 340322007459 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 340322007460 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 340322007461 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 340322007462 dimerization interface [polypeptide binding]; other site 340322007463 putative ATP binding site [chemical binding]; other site 340322007464 amidophosphoribosyltransferase; Provisional; Region: PRK07847 340322007465 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 340322007466 active site 340322007467 tetramer interface [polypeptide binding]; other site 340322007468 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322007469 active site 340322007470 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 340322007471 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 340322007472 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 340322007473 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 340322007474 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 340322007475 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 340322007476 dimerization interface [polypeptide binding]; other site 340322007477 ATP binding site [chemical binding]; other site 340322007478 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 340322007479 dimerization interface [polypeptide binding]; other site 340322007480 ATP binding site [chemical binding]; other site 340322007481 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 340322007482 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 340322007483 putative active site [active] 340322007484 catalytic triad [active] 340322007485 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 340322007486 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 340322007487 catalytic residues [active] 340322007488 dimer interface [polypeptide binding]; other site 340322007489 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 340322007490 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 340322007491 generic binding surface II; other site 340322007492 generic binding surface I; other site 340322007493 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 340322007494 putative active site [active] 340322007495 putative catalytic site [active] 340322007496 putative Mg binding site IVb [ion binding]; other site 340322007497 putative phosphate binding site [ion binding]; other site 340322007498 putative DNA binding site [nucleotide binding]; other site 340322007499 putative Mg binding site IVa [ion binding]; other site 340322007500 Predicted deacetylase [General function prediction only]; Region: COG3233 340322007501 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 340322007502 putative active site [active] 340322007503 putative Zn binding site [ion binding]; other site 340322007504 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 340322007505 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 340322007506 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 340322007507 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 340322007508 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 340322007509 ATP binding site [chemical binding]; other site 340322007510 active site 340322007511 substrate binding site [chemical binding]; other site 340322007512 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 340322007513 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 340322007514 tetramer interface [polypeptide binding]; other site 340322007515 aspartate aminotransferase; Provisional; Region: PRK05764 340322007516 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 340322007517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007518 homodimer interface [polypeptide binding]; other site 340322007519 catalytic residue [active] 340322007520 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 340322007521 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 340322007522 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 340322007523 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 340322007524 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 340322007525 nucleotide binding site/active site [active] 340322007526 HIT family signature motif; other site 340322007527 catalytic residue [active] 340322007528 Methyltransferase domain; Region: Methyltransf_31; pfam13847 340322007529 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 340322007530 S-adenosylmethionine binding site [chemical binding]; other site 340322007531 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 340322007532 POT family; Region: PTR2; cl17359 340322007533 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05630 340322007534 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 340322007535 inhibitor-cofactor binding pocket; inhibition site 340322007536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007537 catalytic residue [active] 340322007538 AAA domain; Region: AAA_26; pfam13500 340322007539 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 340322007540 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 340322007541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322007542 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 340322007543 dimerization interface [polypeptide binding]; other site 340322007544 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 340322007545 dimer interface [polypeptide binding]; other site 340322007546 phosphorylation site [posttranslational modification] 340322007547 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 340322007548 ATP binding site [chemical binding]; other site 340322007549 Mg2+ binding site [ion binding]; other site 340322007550 G-X-G motif; other site 340322007551 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322007552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322007553 active site 340322007554 phosphorylation site [posttranslational modification] 340322007555 intermolecular recognition site; other site 340322007556 dimerization interface [polypeptide binding]; other site 340322007557 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 340322007558 DNA binding site [nucleotide binding] 340322007559 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 340322007560 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 340322007561 DNA binding residues [nucleotide binding] 340322007562 dimer interface [polypeptide binding]; other site 340322007563 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 340322007564 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 340322007565 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 340322007566 dimer interface [polypeptide binding]; other site 340322007567 active site 340322007568 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322007569 substrate binding site [chemical binding]; other site 340322007570 catalytic residue [active] 340322007571 pyruvate dehydrogenase; Provisional; Region: PRK06546 340322007572 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 340322007573 PYR/PP interface [polypeptide binding]; other site 340322007574 dimer interface [polypeptide binding]; other site 340322007575 tetramer interface [polypeptide binding]; other site 340322007576 TPP binding site [chemical binding]; other site 340322007577 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 340322007578 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 340322007579 TPP-binding site [chemical binding]; other site 340322007580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007581 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322007582 putative substrate translocation pore; other site 340322007583 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007584 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322007585 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322007586 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 340322007587 Ion channel regulatory protein UNC-93; Region: UNC-93; pfam05978 340322007588 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 340322007589 active site 340322007590 catalytic residues [active] 340322007591 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 340322007592 active site 340322007593 catalytic residues [active] 340322007594 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 340322007595 putative succinate dehydrogenase; Reviewed; Region: PRK12842 340322007596 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 340322007597 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 340322007598 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 340322007599 NAD(P) binding site [chemical binding]; other site 340322007600 YCII-related domain; Region: YCII; cl00999 340322007601 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007602 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322007603 putative substrate translocation pore; other site 340322007604 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 340322007605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322007606 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 340322007607 dimerization interface [polypeptide binding]; other site 340322007608 substrate binding pocket [chemical binding]; other site 340322007609 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 340322007610 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl17742 340322007611 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 340322007612 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 340322007613 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 340322007614 active site 340322007615 motif I; other site 340322007616 motif II; other site 340322007617 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 340322007618 Uncharacterized conserved protein [Function unknown]; Region: COG5646 340322007619 Uncharacterized conserved protein [Function unknown]; Region: COG2966 340322007620 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 340322007621 Uncharacterized conserved protein [Function unknown]; Region: COG3610 340322007622 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 340322007623 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 340322007624 active site 340322007625 homotetramer interface [polypeptide binding]; other site 340322007626 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 340322007627 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 340322007628 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322007629 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322007630 DNA binding site [nucleotide binding] 340322007631 domain linker motif; other site 340322007632 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 340322007633 putative dimerization interface [polypeptide binding]; other site 340322007634 putative ligand binding site [chemical binding]; other site 340322007635 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 340322007636 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 340322007637 intersubunit interface [polypeptide binding]; other site 340322007638 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 340322007639 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322007640 Walker A/P-loop; other site 340322007641 ATP binding site [chemical binding]; other site 340322007642 Q-loop/lid; other site 340322007643 ABC transporter signature motif; other site 340322007644 Walker B; other site 340322007645 D-loop; other site 340322007646 H-loop/switch region; other site 340322007647 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 340322007648 dimer interface [polypeptide binding]; other site 340322007649 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 340322007650 putative PBP binding regions; other site 340322007651 ABC-ATPase subunit interface; other site 340322007652 hypothetical protein; Provisional; Region: PRK12839 340322007653 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 340322007654 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 340322007655 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322007656 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322007657 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322007658 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322007659 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007660 putative substrate translocation pore; other site 340322007661 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322007662 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 340322007663 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322007664 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340322007665 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 340322007666 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 340322007667 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 340322007668 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322007669 active site 340322007670 HIGH motif; other site 340322007671 nucleotide binding site [chemical binding]; other site 340322007672 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 340322007673 KMSKS motif; other site 340322007674 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340322007675 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 340322007676 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 340322007677 active site turn [active] 340322007678 phosphorylation site [posttranslational modification] 340322007679 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 340322007680 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 340322007681 HPr interaction site; other site 340322007682 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322007683 active site 340322007684 phosphorylation site [posttranslational modification] 340322007685 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 340322007686 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 340322007687 substrate binding [chemical binding]; other site 340322007688 active site 340322007689 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 340322007690 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 340322007691 active site 340322007692 trimer interface [polypeptide binding]; other site 340322007693 allosteric site; other site 340322007694 active site lid [active] 340322007695 hexamer (dimer of trimers) interface [polypeptide binding]; other site 340322007696 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 340322007697 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 340322007698 active site 340322007699 dimer interface [polypeptide binding]; other site 340322007700 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 340322007701 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 340322007702 inhibitor site; inhibition site 340322007703 active site 340322007704 dimer interface [polypeptide binding]; other site 340322007705 catalytic residue [active] 340322007706 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340322007707 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 340322007708 nucleotide binding site [chemical binding]; other site 340322007709 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 340322007710 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 340322007711 putative active site cavity [active] 340322007712 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 340322007713 catalytic site [active] 340322007714 Asp-box motif; other site 340322007715 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322007716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007717 DNA-binding site [nucleotide binding]; DNA binding site 340322007718 FCD domain; Region: FCD; pfam07729 340322007719 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 340322007720 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 340322007721 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322007722 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007723 dimer interface [polypeptide binding]; other site 340322007724 conserved gate region; other site 340322007725 putative PBP binding loops; other site 340322007726 ABC-ATPase subunit interface; other site 340322007727 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 340322007728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 340322007729 dimer interface [polypeptide binding]; other site 340322007730 conserved gate region; other site 340322007731 putative PBP binding loops; other site 340322007732 ABC-ATPase subunit interface; other site 340322007733 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 340322007734 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322007735 Walker A/P-loop; other site 340322007736 ATP binding site [chemical binding]; other site 340322007737 Q-loop/lid; other site 340322007738 ABC transporter signature motif; other site 340322007739 Walker B; other site 340322007740 D-loop; other site 340322007741 H-loop/switch region; other site 340322007742 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 340322007743 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 340322007744 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 340322007745 Walker A/P-loop; other site 340322007746 ATP binding site [chemical binding]; other site 340322007747 Q-loop/lid; other site 340322007748 ABC transporter signature motif; other site 340322007749 Walker B; other site 340322007750 D-loop; other site 340322007751 H-loop/switch region; other site 340322007752 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322007753 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 340322007754 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 340322007755 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 340322007756 putative DNA binding site [nucleotide binding]; other site 340322007757 putative Zn2+ binding site [ion binding]; other site 340322007758 AsnC family; Region: AsnC_trans_reg; pfam01037 340322007759 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 340322007760 homotrimer interaction site [polypeptide binding]; other site 340322007761 zinc binding site [ion binding]; other site 340322007762 CDP-binding sites; other site 340322007763 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 340322007764 substrate binding site; other site 340322007765 dimer interface; other site 340322007766 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 340322007767 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322007768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322007769 active site 340322007770 phosphorylation site [posttranslational modification] 340322007771 intermolecular recognition site; other site 340322007772 dimerization interface [polypeptide binding]; other site 340322007773 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 340322007774 DNA binding site [nucleotide binding] 340322007775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322007776 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 340322007777 dimerization interface [polypeptide binding]; other site 340322007778 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 340322007779 dimer interface [polypeptide binding]; other site 340322007780 phosphorylation site [posttranslational modification] 340322007781 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 340322007782 ATP binding site [chemical binding]; other site 340322007783 Mg2+ binding site [ion binding]; other site 340322007784 G-X-G motif; other site 340322007785 DNA repair protein RadA; Provisional; Region: PRK11823 340322007786 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 340322007787 Walker A motif; other site 340322007788 ATP binding site [chemical binding]; other site 340322007789 Walker B motif; other site 340322007790 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 340322007791 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]; Region: COG1623 340322007792 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 340322007793 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 340322007794 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 340322007795 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322007796 NAD(P) binding site [chemical binding]; other site 340322007797 catalytic residues [active] 340322007798 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 340322007799 active site clefts [active] 340322007800 zinc binding site [ion binding]; other site 340322007801 dimer interface [polypeptide binding]; other site 340322007802 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 340322007803 endonuclease III; Region: ENDO3c; smart00478 340322007804 minor groove reading motif; other site 340322007805 helix-hairpin-helix signature motif; other site 340322007806 substrate binding pocket [chemical binding]; other site 340322007807 active site 340322007808 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 340322007809 Mono-functional DNA-alkylating methyl methanesulfonate N-term; Region: MMS1_N; pfam10433 340322007810 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 340322007811 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 340322007812 acetoin reductases; Region: 23BDH; TIGR02415 340322007813 NAD binding site [chemical binding]; other site 340322007814 homotetramer interface [polypeptide binding]; other site 340322007815 homodimer interface [polypeptide binding]; other site 340322007816 active site 340322007817 substrate binding site [chemical binding]; other site 340322007818 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 340322007819 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 340322007820 Clp amino terminal domain; Region: Clp_N; pfam02861 340322007821 Clp amino terminal domain; Region: Clp_N; pfam02861 340322007822 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 340322007823 Walker A motif; other site 340322007824 ATP binding site [chemical binding]; other site 340322007825 Walker B motif; other site 340322007826 arginine finger; other site 340322007827 UvrB/uvrC motif; Region: UVR; pfam02151 340322007828 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 340322007829 Walker A motif; other site 340322007830 ATP binding site [chemical binding]; other site 340322007831 Walker B motif; other site 340322007832 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 340322007833 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 340322007834 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 340322007835 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 340322007836 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 340322007837 active site 340322007838 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 340322007839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 340322007840 phenol 2-monooxygenase; Provisional; Region: PRK08294 340322007841 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 340322007842 dimer interface [polypeptide binding]; other site 340322007843 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; cl17722 340322007844 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 340322007845 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 340322007846 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322007847 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007848 putative substrate translocation pore; other site 340322007849 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007850 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 340322007851 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 340322007852 dimer interface [polypeptide binding]; other site 340322007853 putative anticodon binding site; other site 340322007854 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 340322007855 motif 1; other site 340322007856 dimer interface [polypeptide binding]; other site 340322007857 active site 340322007858 motif 2; other site 340322007859 motif 3; other site 340322007860 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322007861 pantoate--beta-alanine ligase; Region: panC; TIGR00018 340322007862 active site 340322007863 nucleotide binding site [chemical binding]; other site 340322007864 HIGH motif; other site 340322007865 KMSKS motif; other site 340322007866 Rossmann-like domain; Region: Rossmann-like; pfam10727 340322007867 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 340322007868 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 340322007869 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 340322007870 catalytic center binding site [active] 340322007871 ATP binding site [chemical binding]; other site 340322007872 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 340322007873 homooctamer interface [polypeptide binding]; other site 340322007874 active site 340322007875 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 340322007876 dihydropteroate synthase; Region: DHPS; TIGR01496 340322007877 substrate binding pocket [chemical binding]; other site 340322007878 dimer interface [polypeptide binding]; other site 340322007879 inhibitor binding site; inhibition site 340322007880 GTP cyclohydrolase I; Provisional; Region: PLN03044 340322007881 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 340322007882 homodecamer interface [polypeptide binding]; other site 340322007883 active site 340322007884 putative catalytic site residues [active] 340322007885 zinc binding site [ion binding]; other site 340322007886 GTP-CH-I/GFRP interaction surface; other site 340322007887 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 340322007888 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 340322007889 Walker A motif; other site 340322007890 ATP binding site [chemical binding]; other site 340322007891 Walker B motif; other site 340322007892 arginine finger; other site 340322007893 Peptidase family M41; Region: Peptidase_M41; pfam01434 340322007894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322007895 active site 340322007896 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 340322007897 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 340322007898 Ligand Binding Site [chemical binding]; other site 340322007899 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 340322007900 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 340322007901 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 340322007902 dimer interface [polypeptide binding]; other site 340322007903 substrate binding site [chemical binding]; other site 340322007904 metal binding sites [ion binding]; metal-binding site 340322007905 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 340322007906 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 340322007907 S-adenosylmethionine binding site [chemical binding]; other site 340322007908 Predicted membrane protein [Function unknown]; Region: COG3766 340322007909 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 340322007910 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 340322007911 Protein of unknown function DUF2617; Region: DUF2617; pfam10936 340322007912 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 340322007913 CAT RNA binding domain; Region: CAT_RBD; smart01061 340322007914 transcriptional antiterminator BglG; Provisional; Region: PRK09772 340322007915 PRD domain; Region: PRD; pfam00874 340322007916 PRD domain; Region: PRD; pfam00874 340322007917 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 340322007918 beta-galactosidase; Region: BGL; TIGR03356 340322007919 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 340322007920 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 340322007921 active site turn [active] 340322007922 phosphorylation site [posttranslational modification] 340322007923 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 340322007924 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 340322007925 HPr interaction site; other site 340322007926 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322007927 active site 340322007928 phosphorylation site [posttranslational modification] 340322007929 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 340322007930 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322007931 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322007932 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 340322007933 active site residue [active] 340322007934 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322007935 MarR family; Region: MarR; pfam01047 340322007936 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 340322007937 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 340322007938 acyl-activating enzyme (AAE) consensus motif; other site 340322007939 AMP binding site [chemical binding]; other site 340322007940 active site 340322007941 CoA binding site [chemical binding]; other site 340322007942 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 340322007943 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 340322007944 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 340322007945 putative CoA binding site [chemical binding]; other site 340322007946 putative trimer interface [polypeptide binding]; other site 340322007947 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 340322007948 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 340322007949 putative trimer interface [polypeptide binding]; other site 340322007950 putative CoA binding site [chemical binding]; other site 340322007951 succinic semialdehyde dehydrogenase; Reviewed; Region: gabD2; PRK09407 340322007952 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 2-like; Region: ALDH_SSADH2_GabD2; cd07101 340322007953 NAD(P) binding site [chemical binding]; other site 340322007954 catalytic residues [active] 340322007955 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 340322007956 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 340322007957 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 340322007958 ring oligomerisation interface [polypeptide binding]; other site 340322007959 ATP/Mg binding site [chemical binding]; other site 340322007960 stacking interactions; other site 340322007961 hinge regions; other site 340322007962 Tubulin like; Region: Tubulin_2; pfam13809 340322007963 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 340322007964 metal ion-dependent adhesion site (MIDAS); other site 340322007965 hypothetical protein; Provisional; Region: PRK07907 340322007966 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 340322007967 active site 340322007968 metal binding site [ion binding]; metal-binding site 340322007969 dimer interface [polypeptide binding]; other site 340322007970 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 340322007971 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 340322007972 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 340322007973 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 340322007974 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 340322007975 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 340322007976 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 340322007977 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 340322007978 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK07948 340322007979 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12592 340322007980 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322007981 carboxylate-amine ligase; Provisional; Region: PRK13517 340322007982 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 340322007983 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 340322007984 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 340322007985 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 340322007986 active site 340322007987 catalytic residues [active] 340322007988 metal binding site [ion binding]; metal-binding site 340322007989 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 340322007990 Coenzyme A binding pocket [chemical binding]; other site 340322007991 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 340322007992 putative catalytic site [active] 340322007993 putative phosphate binding site [ion binding]; other site 340322007994 active site 340322007995 metal binding site A [ion binding]; metal-binding site 340322007996 DNA binding site [nucleotide binding] 340322007997 putative AP binding site [nucleotide binding]; other site 340322007998 putative metal binding site B [ion binding]; other site 340322007999 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 340322008000 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 340322008001 putative active site [active] 340322008002 catalytic site [active] 340322008003 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 340322008004 putative active site [active] 340322008005 catalytic site [active] 340322008006 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 340322008007 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008008 putative substrate translocation pore; other site 340322008009 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 340322008010 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 340322008011 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 340322008012 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 340322008013 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 340322008014 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 340322008015 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322008016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322008017 Walker A/P-loop; other site 340322008018 ATP binding site [chemical binding]; other site 340322008019 Q-loop/lid; other site 340322008020 ABC transporter signature motif; other site 340322008021 Walker B; other site 340322008022 D-loop; other site 340322008023 H-loop/switch region; other site 340322008024 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 340322008025 nudix motif; other site 340322008026 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 340322008027 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 340322008028 substrate binding pocket [chemical binding]; other site 340322008029 membrane-bound complex binding site; other site 340322008030 hinge residues; other site 340322008031 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340322008032 Catalytic domain of Protein Kinases; Region: PKc; cd00180 340322008033 active site 340322008034 ATP binding site [chemical binding]; other site 340322008035 substrate binding site [chemical binding]; other site 340322008036 activation loop (A-loop); other site 340322008037 propionate/acetate kinase; Provisional; Region: PRK12379 340322008038 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 340322008039 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 340322008040 ferredoxin-NADP+ reductase; Region: PLN02852 340322008041 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322008042 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 340322008043 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 340322008044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008045 ATP-grasp domain; Region: ATP-grasp; pfam02222 340322008046 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 340322008047 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 340322008048 GDP-binding site [chemical binding]; other site 340322008049 ACT binding site; other site 340322008050 IMP binding site; other site 340322008051 cardiolipin synthetase; Reviewed; Region: PRK12452 340322008052 Predicted membrane protein [Function unknown]; Region: COG4129 340322008053 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 340322008054 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 340322008055 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 340322008056 active site 340322008057 intersubunit interface [polypeptide binding]; other site 340322008058 zinc binding site [ion binding]; other site 340322008059 Na+ binding site [ion binding]; other site 340322008060 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 340322008061 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340322008062 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 340322008063 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340322008064 active site 340322008065 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 340322008066 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 340322008067 active site residue [active] 340322008068 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 340322008069 active site residue [active] 340322008070 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 340322008071 sequence-specific DNA binding site [nucleotide binding]; other site 340322008072 salt bridge; other site 340322008073 H+ Antiporter protein; Region: 2A0121; TIGR00900 340322008074 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008075 putative substrate translocation pore; other site 340322008076 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 340322008077 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 340322008078 Clp amino terminal domain; Region: Clp_N; pfam02861 340322008079 Clp amino terminal domain; Region: Clp_N; pfam02861 340322008080 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 340322008081 Walker A motif; other site 340322008082 ATP binding site [chemical binding]; other site 340322008083 Walker B motif; other site 340322008084 arginine finger; other site 340322008085 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 340322008086 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 340322008087 Walker A motif; other site 340322008088 ATP binding site [chemical binding]; other site 340322008089 Walker B motif; other site 340322008090 arginine finger; other site 340322008091 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 340322008092 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 340322008093 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322008094 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322008095 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322008096 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322008097 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322008098 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 340322008099 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322008100 Coenzyme A binding pocket [chemical binding]; other site 340322008101 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 340322008102 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 340322008103 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 340322008104 FAD binding pocket [chemical binding]; other site 340322008105 conserved FAD binding motif [chemical binding]; other site 340322008106 phosphate binding motif [ion binding]; other site 340322008107 beta-alpha-beta structure motif; other site 340322008108 NAD binding pocket [chemical binding]; other site 340322008109 Predicted amidohydrolase [General function prediction only]; Region: COG0388 340322008110 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 340322008111 putative active site [active] 340322008112 catalytic triad [active] 340322008113 putative dimer interface [polypeptide binding]; other site 340322008114 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 340322008115 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 340322008116 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322008117 NAD(P) binding site [chemical binding]; other site 340322008118 catalytic residues [active] 340322008119 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 340322008120 DNA binding residues [nucleotide binding] 340322008121 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 340322008122 putative dimer interface [polypeptide binding]; other site 340322008123 chaperone protein DnaJ; Provisional; Region: PRK14279 340322008124 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 340322008125 HSP70 interaction site [polypeptide binding]; other site 340322008126 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 340322008127 Zn binding sites [ion binding]; other site 340322008128 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 340322008129 dimer interface [polypeptide binding]; other site 340322008130 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 340322008131 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 340322008132 dimer interface [polypeptide binding]; other site 340322008133 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 340322008134 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 340322008135 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 340322008136 nucleotide binding site [chemical binding]; other site 340322008137 NEF interaction site [polypeptide binding]; other site 340322008138 SBD interface [polypeptide binding]; other site 340322008139 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 340322008140 Domain of unknown function DUF20; Region: UPF0118; pfam01594 340322008141 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 340322008142 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 340322008143 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 340322008144 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 340322008145 NAD binding site [chemical binding]; other site 340322008146 substrate binding site [chemical binding]; other site 340322008147 catalytic Zn binding site [ion binding]; other site 340322008148 tetramer interface [polypeptide binding]; other site 340322008149 structural Zn binding site [ion binding]; other site 340322008150 Cadherin repeat-like domain; Region: CA_like; cl15786 340322008151 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 340322008152 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 340322008153 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 340322008154 putative active site [active] 340322008155 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 340322008156 active site 340322008157 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 340322008158 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 340322008159 CysD dimerization site [polypeptide binding]; other site 340322008160 G1 box; other site 340322008161 putative GEF interaction site [polypeptide binding]; other site 340322008162 GTP/Mg2+ binding site [chemical binding]; other site 340322008163 Switch I region; other site 340322008164 G2 box; other site 340322008165 G3 box; other site 340322008166 Switch II region; other site 340322008167 G4 box; other site 340322008168 G5 box; other site 340322008169 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 340322008170 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 340322008171 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 340322008172 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 340322008173 Active Sites [active] 340322008174 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 340322008175 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 340322008176 Active Sites [active] 340322008177 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 340322008178 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340322008179 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340322008180 ferredoxin-NADP+ reductase; Region: PLN02852 340322008181 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322008182 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 340322008183 dimer interface [polypeptide binding]; other site 340322008184 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340322008185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 340322008186 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 340322008187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 340322008188 Predicted ATPase [General function prediction only]; Region: COG3910 340322008189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 340322008190 Walker A/P-loop; other site 340322008191 ATP binding site [chemical binding]; other site 340322008192 Q-loop/lid; other site 340322008193 ABC transporter signature motif; other site 340322008194 Walker B; other site 340322008195 D-loop; other site 340322008196 H-loop/switch region; other site 340322008197 Predicted ATPase [General function prediction only]; Region: COG3910 340322008198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 340322008199 Walker A/P-loop; other site 340322008200 ATP binding site [chemical binding]; other site 340322008201 Q-loop/lid; other site 340322008202 ABC transporter signature motif; other site 340322008203 Walker B; other site 340322008204 D-loop; other site 340322008205 H-loop/switch region; other site 340322008206 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008207 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322008208 putative substrate translocation pore; other site 340322008209 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 340322008210 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 340322008211 putative metal binding site [ion binding]; other site 340322008212 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 340322008213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 340322008214 Walker A/P-loop; other site 340322008215 ATP binding site [chemical binding]; other site 340322008216 Q-loop/lid; other site 340322008217 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322008218 ABC transporter signature motif; other site 340322008219 Walker B; other site 340322008220 D-loop; other site 340322008221 H-loop/switch region; other site 340322008222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 340322008223 Walker A/P-loop; other site 340322008224 ATP binding site [chemical binding]; other site 340322008225 Q-loop/lid; other site 340322008226 ABC transporter signature motif; other site 340322008227 Walker B; other site 340322008228 D-loop; other site 340322008229 H-loop/switch region; other site 340322008230 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 340322008231 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 340322008232 dimer interface [polypeptide binding]; other site 340322008233 FMN binding site [chemical binding]; other site 340322008234 NADPH bind site [chemical binding]; other site 340322008235 Inosine-uridine nucleoside N-ribohydrolase [Nucleotide transport and metabolism]; Region: URH1; COG1957 340322008236 active site 340322008237 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 340322008238 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 340322008239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 340322008240 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 340322008241 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 340322008242 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 340322008243 heme-binding site [chemical binding]; other site 340322008244 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 340322008245 FAD binding pocket [chemical binding]; other site 340322008246 FAD binding motif [chemical binding]; other site 340322008247 phosphate binding motif [ion binding]; other site 340322008248 beta-alpha-beta structure motif; other site 340322008249 NAD binding pocket [chemical binding]; other site 340322008250 Heme binding pocket [chemical binding]; other site 340322008251 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322008252 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 340322008253 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 340322008254 CAT RNA binding domain; Region: CAT_RBD; smart01061 340322008255 transcriptional antiterminator BglG; Provisional; Region: PRK09772 340322008256 PRD domain; Region: PRD; pfam00874 340322008257 PRD domain; Region: PRD; pfam00874 340322008258 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 340322008259 beta-galactosidase; Region: BGL; TIGR03356 340322008260 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 340322008261 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 340322008262 active site turn [active] 340322008263 phosphorylation site [posttranslational modification] 340322008264 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 340322008265 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 340322008266 HPr interaction site; other site 340322008267 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322008268 active site 340322008269 phosphorylation site [posttranslational modification] 340322008270 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 340322008271 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 340322008272 intersubunit interface [polypeptide binding]; other site 340322008273 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322008274 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 340322008275 ABC-ATPase subunit interface; other site 340322008276 dimer interface [polypeptide binding]; other site 340322008277 putative PBP binding regions; other site 340322008278 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322008279 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 340322008280 ABC-ATPase subunit interface; other site 340322008281 dimer interface [polypeptide binding]; other site 340322008282 putative PBP binding regions; other site 340322008283 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322008284 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322008285 Walker A/P-loop; other site 340322008286 ATP binding site [chemical binding]; other site 340322008287 Q-loop/lid; other site 340322008288 ABC transporter signature motif; other site 340322008289 Walker B; other site 340322008290 D-loop; other site 340322008291 H-loop/switch region; other site 340322008292 aminotransferase AlaT; Validated; Region: PRK09265 340322008293 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 340322008294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322008295 homodimer interface [polypeptide binding]; other site 340322008296 catalytic residue [active] 340322008297 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 340322008298 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 340322008299 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 340322008300 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 340322008301 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 340322008302 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 340322008303 trimer interface [polypeptide binding]; other site 340322008304 active site 340322008305 Htaa; Region: HtaA; pfam04213 340322008306 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 340322008307 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 340322008308 VanW like protein; Region: VanW; pfam04294 340322008309 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 340322008310 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 340322008311 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 340322008312 Ligand Binding Site [chemical binding]; other site 340322008313 Protein of unknown function (DUF2613); Region: DUF2613; pfam11021 340322008314 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 340322008315 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 340322008316 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 340322008317 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322008318 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 340322008319 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 340322008320 S-adenosylmethionine binding site [chemical binding]; other site 340322008321 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 340322008322 active site 340322008323 substrate-binding site [chemical binding]; other site 340322008324 metal-binding site [ion binding] 340322008325 GTP binding site [chemical binding]; other site 340322008326 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 340322008327 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 340322008328 gating phenylalanine in ion channel; other site 340322008329 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 340322008330 S-adenosylmethionine binding site [chemical binding]; other site 340322008331 LabA_like proteins; Region: LabA_like; cd06167 340322008332 putative metal binding site [ion binding]; other site 340322008333 MMPL family; Region: MMPL; pfam03176 340322008334 MMPL family; Region: MMPL; pfam03176 340322008335 Predicted integral membrane protein [Function unknown]; Region: COG0392 340322008336 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 340322008337 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 340322008338 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 340322008339 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 340322008340 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 340322008341 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 340322008342 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 340322008343 active site 340322008344 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 340322008345 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 340322008346 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 340322008347 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 340322008348 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 340322008349 acyl-activating enzyme (AAE) consensus motif; other site 340322008350 active site 340322008351 Cutinase; Region: Cutinase; pfam01083 340322008352 Putative esterase; Region: Esterase; pfam00756 340322008353 S-formylglutathione hydrolase; Region: PLN02442 340322008354 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 340322008355 LGFP repeat; Region: LGFP; pfam08310 340322008356 LGFP repeat; Region: LGFP; pfam08310 340322008357 LGFP repeat; Region: LGFP; pfam08310 340322008358 Domain of unknown function (DUF222); Region: DUF222; pfam02720 340322008359 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 340322008360 active site 340322008361 Putative esterase; Region: Esterase; pfam00756 340322008362 S-formylglutathione hydrolase; Region: PLN02442 340322008363 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 340322008364 UbiA prenyltransferase family; Region: UbiA; pfam01040 340322008365 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 340322008366 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 340322008367 active site 340322008368 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322008369 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 340322008370 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 340322008371 active site 340322008372 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 340322008373 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322008374 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322008375 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 340322008376 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 340322008377 UDP-galactopyranose mutase; Region: GLF; pfam03275 340322008378 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 340322008379 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 340322008380 amidase catalytic site [active] 340322008381 Zn binding residues [ion binding]; other site 340322008382 substrate binding site [chemical binding]; other site 340322008383 LGFP repeat; Region: LGFP; pfam08310 340322008384 glycerol kinase; Provisional; Region: glpK; PRK00047 340322008385 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 340322008386 N- and C-terminal domain interface [polypeptide binding]; other site 340322008387 active site 340322008388 MgATP binding site [chemical binding]; other site 340322008389 catalytic site [active] 340322008390 metal binding site [ion binding]; metal-binding site 340322008391 putative homotetramer interface [polypeptide binding]; other site 340322008392 glycerol binding site [chemical binding]; other site 340322008393 homodimer interface [polypeptide binding]; other site 340322008394 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 340322008395 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 340322008396 active site 340322008397 motif I; other site 340322008398 motif II; other site 340322008399 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 340322008400 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 340322008401 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 340322008402 putative acyl-acceptor binding pocket; other site 340322008403 seryl-tRNA synthetase; Provisional; Region: PRK05431 340322008404 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 340322008405 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 340322008406 dimer interface [polypeptide binding]; other site 340322008407 active site 340322008408 motif 1; other site 340322008409 motif 2; other site 340322008410 motif 3; other site 340322008411 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 340322008412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322008413 DNA-binding site [nucleotide binding]; DNA binding site 340322008414 UTRA domain; Region: UTRA; pfam07702 340322008415 Septum formation; Region: Septum_form; pfam13845 340322008416 Septum formation; Region: Septum_form; pfam13845 340322008417 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 340322008418 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 340322008419 catalytic core [active] 340322008420 prephenate dehydratase; Provisional; Region: PRK11898 340322008421 Prephenate dehydratase; Region: PDT; pfam00800 340322008422 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 340322008423 putative L-Phe binding site [chemical binding]; other site 340322008424 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 340322008425 Amidase; Region: Amidase; cl11426 340322008426 CAAX protease self-immunity; Region: Abi; pfam02517 340322008427 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 340322008428 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 340322008429 active site 340322008430 catalytic site [active] 340322008431 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 340322008432 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 340322008433 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 340322008434 active site 340322008435 catalytic site [active] 340322008436 Transcriptional regulator [Transcription]; Region: LytR; COG1316 340322008437 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 340322008438 T5orf172 domain; Region: T5orf172; pfam10544 340322008439 YheO-like PAS domain; Region: PAS_6; pfam08348 340322008440 HTH domain; Region: HTH_22; pfam13309 340322008441 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 340322008442 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 340322008443 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 340322008444 active site 340322008445 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008446 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322008447 putative substrate translocation pore; other site 340322008448 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 340322008449 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 340322008450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322008451 homodimer interface [polypeptide binding]; other site 340322008452 catalytic residue [active] 340322008453 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 340322008454 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 340322008455 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 340322008456 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 340322008457 putative active site [active] 340322008458 catalytic site [active] 340322008459 putative metal binding site [ion binding]; other site 340322008460 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 340322008461 fructuronate transporter; Provisional; Region: PRK10034; cl15264 340322008462 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322008463 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322008464 DNA-binding site [nucleotide binding]; DNA binding site 340322008465 FCD domain; Region: FCD; pfam07729 340322008466 L-asparaginase II; Region: Asparaginase_II; pfam06089 340322008467 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 340322008468 Aspartase; Region: Aspartase; cd01357 340322008469 active sites [active] 340322008470 tetramer interface [polypeptide binding]; other site 340322008471 L-asparagine permease; Provisional; Region: PRK15049 340322008472 pyruvate kinase; Provisional; Region: PRK14725 340322008473 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 340322008474 active site 340322008475 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 340322008476 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 340322008477 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322008478 NAD binding site [chemical binding]; other site 340322008479 dimer interface [polypeptide binding]; other site 340322008480 substrate binding site [chemical binding]; other site 340322008481 Predicted membrane protein [Function unknown]; Region: COG4425 340322008482 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 340322008483 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 340322008484 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 340322008485 motif II; other site 340322008486 Predicted flavoprotein [General function prediction only]; Region: COG0431 340322008487 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 340322008488 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322008489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322008490 DNA-binding site [nucleotide binding]; DNA binding site 340322008491 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 340322008492 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322008493 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322008494 active site 340322008495 metal binding site [ion binding]; metal-binding site 340322008496 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322008497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008498 putative substrate translocation pore; other site 340322008499 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 340322008500 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 340322008501 active site 340322008502 substrate binding site [chemical binding]; other site 340322008503 FMN binding site [chemical binding]; other site 340322008504 putative catalytic residues [active] 340322008505 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 340322008506 pentamer interface [polypeptide binding]; other site 340322008507 dodecaamer interface [polypeptide binding]; other site 340322008508 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 340322008509 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 340322008510 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 340322008511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322008512 DNA-binding site [nucleotide binding]; DNA binding site 340322008513 FCD domain; Region: FCD; pfam07729 340322008514 FAD dependent oxidoreductase; Region: DAO; pfam01266 340322008515 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 340322008516 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 340322008517 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 340322008518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 340322008519 aldehyde dehydrogenase family 7 member; Region: PLN02315 340322008520 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 340322008521 tetrameric interface [polypeptide binding]; other site 340322008522 NAD binding site [chemical binding]; other site 340322008523 catalytic residues [active] 340322008524 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 340322008525 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 340322008526 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 340322008527 NAD(P) binding site [chemical binding]; other site 340322008528 Uncharacterized conserved protein [Function unknown]; Region: COG4894 340322008529 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 340322008530 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322008531 metal binding site [ion binding]; metal-binding site 340322008532 putative dimer interface [polypeptide binding]; other site 340322008533 methionine sulfoxide reductase A; Provisional; Region: PRK00058 340322008534 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 340322008535 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 340322008536 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 340322008537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322008538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 340322008539 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 340322008540 putative dimerization interface [polypeptide binding]; other site 340322008541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008542 putative substrate translocation pore; other site 340322008543 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 340322008544 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 340322008545 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 340322008546 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 340322008547 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 340322008548 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 340322008549 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 340322008550 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 340322008551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008552 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 340322008553 NAD(P) binding site [chemical binding]; other site 340322008554 active site 340322008555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008556 putative substrate translocation pore; other site 340322008557 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322008558 MarR family; Region: MarR_2; pfam12802 340322008559 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322008560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340322008561 active site 340322008562 phosphorylation site [posttranslational modification] 340322008563 intermolecular recognition site; other site 340322008564 dimerization interface [polypeptide binding]; other site 340322008565 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 340322008566 DNA binding residues [nucleotide binding] 340322008567 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 340322008568 Histidine kinase; Region: HisKA_3; pfam07730 340322008569 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 340322008570 ATP binding site [chemical binding]; other site 340322008571 Mg2+ binding site [ion binding]; other site 340322008572 G-X-G motif; other site 340322008573 Domain of unknown function (DUF2020); Region: DUF2020; pfam09449 340322008574 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 340322008575 active site 340322008576 catalytic site [active] 340322008577 putative inner membrane protein translocase component YidC; Validated; Region: PRK00247 340322008578 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 340322008579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322008580 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322008581 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 340322008582 Ligand Binding Site [chemical binding]; other site 340322008583 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 340322008584 Ligand Binding Site [chemical binding]; other site 340322008585 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 340322008586 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322008587 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 340322008588 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 340322008589 probable active site [active] 340322008590 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 340322008591 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 340322008592 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 340322008593 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 340322008594 putative ligand binding site [chemical binding]; other site 340322008595 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 340322008596 MarR family; Region: MarR_2; pfam12802 340322008597 Predicted transcriptional regulators [Transcription]; Region: COG1725 340322008598 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322008599 DNA-binding site [nucleotide binding]; DNA binding site 340322008600 LabA_like proteins; Region: LabA_like; cd06167 340322008601 putative metal binding site [ion binding]; other site 340322008602 Uncharacterized conserved protein [Function unknown]; Region: COG1432 340322008603 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 340322008604 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 340322008605 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 340322008606 catalytic residues [active] 340322008607 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 340322008608 metal-binding site [ion binding] 340322008609 benzoate transport; Region: 2A0115; TIGR00895 340322008610 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008611 putative substrate translocation pore; other site 340322008612 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008613 Predicted transcriptional regulators [Transcription]; Region: COG1695 340322008614 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 340322008615 replicative DNA helicase; Provisional; Region: PRK05636 340322008616 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 340322008617 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 340322008618 Walker A motif; other site 340322008619 ATP binding site [chemical binding]; other site 340322008620 Walker B motif; other site 340322008621 DNA binding loops [nucleotide binding] 340322008622 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 340322008623 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 340322008624 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 340322008625 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 340322008626 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 340322008627 dimer interface [polypeptide binding]; other site 340322008628 ssDNA binding site [nucleotide binding]; other site 340322008629 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322008630 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 340322008631 Predicted integral membrane protein [Function unknown]; Region: COG5650 340322008632 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 340322008633 Transglycosylase; Region: Transgly; pfam00912 340322008634 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 340322008635 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 340322008636 MarR family; Region: MarR; pfam01047 340322008637 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 340322008638 Ligand Binding Site [chemical binding]; other site 340322008639 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 340322008640 Ligand Binding Site [chemical binding]; other site 340322008641 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 340322008642 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 340322008643 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 340322008644 active site residue [active] 340322008645 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340322008646 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340322008647 FtsX-like permease family; Region: FtsX; pfam02687 340322008648 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322008649 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 340322008650 Walker A/P-loop; other site 340322008651 ATP binding site [chemical binding]; other site 340322008652 Q-loop/lid; other site 340322008653 ABC transporter signature motif; other site 340322008654 Walker B; other site 340322008655 D-loop; other site 340322008656 H-loop/switch region; other site 340322008657 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340322008658 HlyD family secretion protein; Region: HlyD_3; pfam13437 340322008659 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 340322008660 inositol 1-phosphate synthase, Actinobacterial type; Region: mycothiol_INO1; TIGR03450 340322008661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 340322008662 hypothetical protein; Provisional; Region: PRK13663 340322008663 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 340322008664 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 340322008665 dimerization interface [polypeptide binding]; other site 340322008666 DPS ferroxidase diiron center [ion binding]; other site 340322008667 ion pore; other site 340322008668 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 340322008669 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 340322008670 putative DNA binding site [nucleotide binding]; other site 340322008671 catalytic residue [active] 340322008672 putative H2TH interface [polypeptide binding]; other site 340322008673 putative catalytic residues [active] 340322008674 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 340322008675 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 340322008676 hypothetical protein; Reviewed; Region: PRK09588 340322008677 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 340322008678 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 340322008679 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 340322008680 DNA binding site [nucleotide binding] 340322008681 active site 340322008682 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 340322008683 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 340322008684 putative NAD(P) binding site [chemical binding]; other site 340322008685 dimer interface [polypeptide binding]; other site 340322008686 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322008687 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 340322008688 intersubunit interface [polypeptide binding]; other site 340322008689 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 340322008690 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008691 putative substrate translocation pore; other site 340322008692 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 340322008693 Malic enzyme, N-terminal domain; Region: malic; pfam00390 340322008694 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 340322008695 putative NAD(P) binding site [chemical binding]; other site 340322008696 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 340322008697 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 340322008698 N- and C-terminal domain interface [polypeptide binding]; other site 340322008699 active site 340322008700 catalytic site [active] 340322008701 metal binding site [ion binding]; metal-binding site 340322008702 carbohydrate binding site [chemical binding]; other site 340322008703 ATP binding site [chemical binding]; other site 340322008704 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 340322008705 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 340322008706 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 340322008707 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 340322008708 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322008709 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322008710 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 340322008711 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322008712 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 340322008713 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 340322008714 metal ion-dependent adhesion site (MIDAS); other site 340322008715 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 340322008716 putative FMN binding site [chemical binding]; other site 340322008717 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 340322008718 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 340322008719 HIGH motif; other site 340322008720 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 340322008721 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322008722 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322008723 active site 340322008724 KMSKS motif; other site 340322008725 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 340322008726 tRNA binding surface [nucleotide binding]; other site 340322008727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 340322008728 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 340322008729 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 340322008730 non-specific DNA binding site [nucleotide binding]; other site 340322008731 salt bridge; other site 340322008732 sequence-specific DNA binding site [nucleotide binding]; other site 340322008733 mycothiol-dependent maleylpyruvate isomerase; Reviewed; Region: PRK09583 340322008734 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 340322008735 MDMPI C-terminal domain; Region: MDMPI_C; pfam07398 340322008736 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 340322008737 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 340322008738 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 340322008739 Cupin domain; Region: Cupin_2; pfam07883 340322008740 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 340322008741 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322008742 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322008743 benzoate transport; Region: 2A0115; TIGR00895 340322008744 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008745 putative substrate translocation pore; other site 340322008746 salicylate hydroxylase; Provisional; Region: PRK08163 340322008747 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 340322008748 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 340322008749 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 340322008750 SdpI/YhfL protein family; Region: SdpI; pfam13630 340322008751 Predicted integral membrane protein [Function unknown]; Region: COG5658 340322008752 anthranilate synthase component I; Provisional; Region: PRK13564 340322008753 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 340322008754 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 340322008755 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 340322008756 Glutamine amidotransferase class-I; Region: GATase; pfam00117 340322008757 glutamine binding [chemical binding]; other site 340322008758 catalytic triad [active] 340322008759 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 340322008760 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 340322008761 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 340322008762 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 340322008763 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 340322008764 active site 340322008765 ribulose/triose binding site [chemical binding]; other site 340322008766 phosphate binding site [ion binding]; other site 340322008767 substrate (anthranilate) binding pocket [chemical binding]; other site 340322008768 product (indole) binding pocket [chemical binding]; other site 340322008769 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 340322008770 active site 340322008771 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 340322008772 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 340322008773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322008774 catalytic residue [active] 340322008775 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 340322008776 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 340322008777 substrate binding site [chemical binding]; other site 340322008778 active site 340322008779 catalytic residues [active] 340322008780 heterodimer interface [polypeptide binding]; other site 340322008781 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 340322008782 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 340322008783 active site 340322008784 phosphorylation site [posttranslational modification] 340322008785 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 340322008786 active site 340322008787 P-loop; other site 340322008788 phosphorylation site [posttranslational modification] 340322008789 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322008790 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 340322008791 Walker A/P-loop; other site 340322008792 ATP binding site [chemical binding]; other site 340322008793 Q-loop/lid; other site 340322008794 ABC transporter signature motif; other site 340322008795 Walker B; other site 340322008796 D-loop; other site 340322008797 H-loop/switch region; other site 340322008798 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 340322008799 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 340322008800 iron-sulfur cluster [ion binding]; other site 340322008801 [2Fe-2S] cluster binding site [ion binding]; other site 340322008802 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 340322008803 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 340322008804 active site 340322008805 FMN binding site [chemical binding]; other site 340322008806 substrate binding site [chemical binding]; other site 340322008807 homotetramer interface [polypeptide binding]; other site 340322008808 catalytic residue [active] 340322008809 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 340322008810 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 340322008811 Uncharacterized conserved protein [Function unknown]; Region: COG3358 340322008812 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 340322008813 putative DNA binding site [nucleotide binding]; other site 340322008814 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 340322008815 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 340322008816 active site 340322008817 FMN binding site [chemical binding]; other site 340322008818 substrate binding site [chemical binding]; other site 340322008819 homotetramer interface [polypeptide binding]; other site 340322008820 catalytic residue [active] 340322008821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008822 NADH(P)-binding; Region: NAD_binding_10; pfam13460 340322008823 NAD(P) binding site [chemical binding]; other site 340322008824 active site 340322008825 short chain dehydrogenase; Provisional; Region: PRK08267 340322008826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008827 NAD(P) binding site [chemical binding]; other site 340322008828 active site 340322008829 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 340322008830 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 340322008831 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 340322008832 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008833 putative substrate translocation pore; other site 340322008834 POT family; Region: PTR2; cl17359 340322008835 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322008836 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 340322008837 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 340322008838 active site 340322008839 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 340322008840 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 340322008841 active site 340322008842 dimer interface [polypeptide binding]; other site 340322008843 metal binding site [ion binding]; metal-binding site 340322008844 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 340322008845 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008846 putative substrate translocation pore; other site 340322008847 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008848 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322008849 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 340322008850 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322008851 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 340322008852 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322008853 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322008854 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322008855 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322008856 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322008857 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322008858 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322008859 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322008860 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322008861 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 340322008862 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 340322008863 Lamin Tail Domain; Region: LTD; pfam00932 340322008864 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 340322008865 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 340322008866 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322008867 putative active site [active] 340322008868 putative metal binding site [ion binding]; other site 340322008869 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 340322008870 classical (c) SDRs; Region: SDR_c; cd05233 340322008871 NAD(P) binding site [chemical binding]; other site 340322008872 active site 340322008873 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 340322008874 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 340322008875 acyl-activating enzyme (AAE) consensus motif; other site 340322008876 putative AMP binding site [chemical binding]; other site 340322008877 putative active site [active] 340322008878 putative CoA binding site [chemical binding]; other site 340322008879 benzoate transport; Region: 2A0115; TIGR00895 340322008880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008881 putative substrate translocation pore; other site 340322008882 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008883 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322008884 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 340322008885 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322008886 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 340322008887 active site 340322008888 proline/glycine betaine transporter; Provisional; Region: PRK10642 340322008889 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008890 putative substrate translocation pore; other site 340322008891 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 340322008892 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 340322008893 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 340322008894 homodimer interface [polypeptide binding]; other site 340322008895 chemical substrate binding site [chemical binding]; other site 340322008896 oligomer interface [polypeptide binding]; other site 340322008897 metal binding site [ion binding]; metal-binding site 340322008898 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 340322008899 catalytic site [active] 340322008900 metal binding site [ion binding]; metal-binding site 340322008901 AAA ATPase domain; Region: AAA_16; pfam13191 340322008902 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 340322008903 Uncharacterized conserved protein [Function unknown]; Region: COG3410 340322008904 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 340322008905 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 340322008906 siderophore binding site; other site 340322008907 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 340322008908 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 340322008909 putative NAD(P) binding site [chemical binding]; other site 340322008910 putative dimer interface [polypeptide binding]; other site 340322008911 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 340322008912 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 340322008913 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 340322008914 substrate binding site [chemical binding]; other site 340322008915 dimer interface [polypeptide binding]; other site 340322008916 ATP binding site [chemical binding]; other site 340322008917 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 340322008918 metal-binding site [ion binding] 340322008919 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 340322008920 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 340322008921 hypothetical protein; Validated; Region: PRK00228 340322008922 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 340322008923 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 340322008924 active site 340322008925 NTP binding site [chemical binding]; other site 340322008926 metal binding triad [ion binding]; metal-binding site 340322008927 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 340322008928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 340322008929 Zn2+ binding site [ion binding]; other site 340322008930 Mg2+ binding site [ion binding]; other site 340322008931 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 340322008932 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 340322008933 active site 340322008934 Ap6A binding site [chemical binding]; other site 340322008935 nudix motif; other site 340322008936 metal binding site [ion binding]; metal-binding site 340322008937 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 340322008938 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 340322008939 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 340322008940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322008941 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 340322008942 DNA binding residues [nucleotide binding] 340322008943 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 340322008944 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 340322008945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340322008946 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 340322008947 catalytic residues [active] 340322008948 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 340322008949 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 340322008950 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 340322008951 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 340322008952 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 340322008953 active site 340322008954 metal binding site [ion binding]; metal-binding site 340322008955 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 340322008956 ParB-like nuclease domain; Region: ParB; smart00470 340322008957 KorB domain; Region: KorB; pfam08535 340322008958 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 340322008959 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 340322008960 P-loop; other site 340322008961 Magnesium ion binding site [ion binding]; other site 340322008962 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 340322008963 Magnesium ion binding site [ion binding]; other site 340322008964 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 340322008965 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 340322008966 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 340322008967 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 340322008968 ribonuclease P; Reviewed; Region: rnpA; PRK03459 340322008969 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 340322008970 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 340322008971 dimer interface [polypeptide binding]; other site 340322008972 ssDNA binding site [nucleotide binding]; other site 340322008973 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322008974 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; cl17393 340322008975 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 340322008976 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 340322008977 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; cl17393 340322008978 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 340322008979 Minor capsid protein; Region: Minor_capsid_2; pfam11114 340322008980 tape measure domain; Region: tape_meas_nterm; TIGR02675 340322008981 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 340322008982 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 340322008983 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 340322008984 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 340322008985 Walker A motif; other site 340322008986 ATP binding site [chemical binding]; other site 340322008987 Walker B motif; other site 340322008988 DNA binding loops [nucleotide binding]