-- dump date 20111121_011558 -- class Genbank::misc_feature -- table misc_feature_note -- id note 340322000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 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...; 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...; 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 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; 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 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 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 Protein of unknown function (DUF721); Region: DUF721; cl02324 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; cl00075 340322000028 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 340322000029 anchoring element; other site 340322000030 dimer interface [polypeptide binding]; other site 340322000031 ATP binding site [chemical binding]; other site 340322000032 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 340322000033 active site 340322000034 putative metal-binding site [ion binding]; other site 340322000035 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 340322000036 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 340322000037 Predicted membrane protein [Function unknown]; Region: COG2364 340322000038 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 340322000039 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340322000040 DNA gyrase subunit A; Validated; Region: PRK05560 340322000041 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 in...; Region: TOP4c; cd00187 340322000042 CAP-like domain; other site 340322000043 Active site [active] 340322000044 primary dimer interface [polypeptide binding]; other site 340322000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340322000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 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 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 340322000052 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322000053 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 340322000054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322000055 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322000056 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 340322000057 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322000058 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 340322000059 NAD(P) binding site [chemical binding]; other site 340322000060 catalytic residues [active] 340322000061 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 340322000062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322000063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000064 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 340322000065 dimerization interface [polypeptide binding]; other site 340322000066 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 340322000067 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322000068 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 340322000069 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000070 Peptidase family M48; Region: Peptidase_M48; cl12018 340322000071 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 340322000072 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322000073 active site 340322000074 metal binding site [ion binding]; metal-binding site 340322000075 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 340322000076 Protein of unknown function (DUF418); Region: DUF418; cl12135 340322000077 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 340322000078 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322000079 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 340322000080 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 340322000081 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 340322000082 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 340322000083 putative ADP-binding pocket [chemical binding]; other site 340322000084 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322000085 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 340322000086 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 340322000087 Bacterial sugar transferase; Region: Bac_transf; cl00939 340322000088 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 340322000089 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 340322000090 OsmC-like protein; Region: OsmC; cl00767 340322000091 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 340322000092 Divergent AAA domain; Region: AAA_4; pfam04326 340322000093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000094 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...; Region: TroA-like; cl00262 340322000095 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 340322000096 intersubunit interface [polypeptide binding]; other site 340322000097 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322000098 ABC-ATPase subunit interface; other site 340322000099 dimer interface [polypeptide binding]; other site 340322000100 putative PBP binding regions; other site 340322000101 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322000102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322000103 Walker A/P-loop; other site 340322000104 ATP binding site [chemical binding]; other site 340322000105 Q-loop/lid; other site 340322000106 ABC transporter signature motif; other site 340322000107 Walker B; other site 340322000108 D-loop; other site 340322000109 H-loop/switch region; other site 340322000110 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 340322000111 putative ligand binding site [chemical binding]; other site 340322000112 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 340322000113 TM-ABC transporter signature motif; other site 340322000114 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 340322000115 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 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 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 340322000124 active site 340322000125 Rhomboid family; Region: Rhomboid; cl11446 340322000126 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 340322000127 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 340322000128 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...; Region: TroA-like; cl00262 340322000129 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...; Region: TroA-like; cl00262 340322000130 Uncharacterised protein family (UPF0233); Region: UPF0233; cl11506 340322000131 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340322000132 active site 340322000133 ATP binding site [chemical binding]; other site 340322000134 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340322000135 substrate binding site [chemical binding]; other site 340322000136 activation loop (A-loop); other site 340322000137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 340322000138 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 340322000139 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 340322000140 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 340322000141 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 340322000142 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340322000143 active site 340322000144 ATP binding site [chemical binding]; other site 340322000145 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340322000146 substrate binding site [chemical binding]; other site 340322000147 activation loop (A-loop); other site 340322000148 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 340322000149 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 340322000150 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 340322000151 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 340322000152 Active site [active] 340322000153 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 340322000154 phosphopeptide binding site; other site 340322000155 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 340322000156 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 340322000157 phosphopeptide binding site; other site 340322000158 putative succinate dehydrogenase; Reviewed; Region: PRK12842 340322000159 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322000160 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322000161 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000162 putative substrate translocation pore; other site 340322000163 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 340322000164 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 340322000165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322000166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 340322000168 NAD(P) binding site [chemical binding]; other site 340322000169 active site 340322000170 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322000171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000172 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322000173 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 340322000174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 340322000175 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322000176 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 340322000177 tetramerization interface [polypeptide binding]; other site 340322000178 NAD(P) binding site [chemical binding]; other site 340322000179 catalytic residues [active] 340322000180 Phenol hydroxylase, C-terminal dimerisation domain; Region: Phe_hydrox_dim; pfam07976 340322000181 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322000182 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 340322000183 active site residue [active] 340322000184 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 340322000185 active site residue [active] 340322000186 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 340322000187 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 340322000188 active site residue [active] 340322000189 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 340322000190 active site residue [active] 340322000191 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 340322000192 putative homotetramer interface [polypeptide binding]; other site 340322000193 putative homodimer interface [polypeptide binding]; other site 340322000194 putative allosteric switch controlling residues; other site 340322000195 putative metal binding site [ion binding]; other site 340322000196 putative homodimer-homodimer interface [polypeptide binding]; other site 340322000197 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 340322000198 putative metal binding residues [ion binding]; other site 340322000199 signature motif; other site 340322000200 dimer interface [polypeptide binding]; other site 340322000201 polyP binding site; other site 340322000202 active site 340322000203 substrate binding site [chemical binding]; other site 340322000204 acceptor-phosphate pocket; other site 340322000205 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 340322000206 Spore coat assembly protein [Cell envelope biogenesis, outer membrane]; Region: CotH; COG5337 340322000207 Spore coat assembly protein [Cell envelope biogenesis, outer membrane]; Region: CotH; COG5337 340322000208 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 340322000209 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 340322000210 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 340322000211 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 340322000212 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-...; Region: ClC_like; cd01033 340322000213 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 340322000214 putative ion selectivity filter; other site 340322000215 putative pore gating glutamate residue; other site 340322000216 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 340322000217 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 340322000218 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 340322000219 putative active site [active] 340322000220 PhoH-like protein; Region: PhoH; cl12134 340322000221 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; cl09110 340322000222 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; cl09110 340322000223 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 340322000224 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 340322000225 ATP binding site [chemical binding]; other site 340322000226 Mg2+ binding site [ion binding]; other site 340322000227 G-X-G motif; other site 340322000228 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 340322000229 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 340322000230 active site 340322000231 phosphorylation site [posttranslational modification] 340322000232 intermolecular recognition site; other site 340322000233 dimerization interface [polypeptide binding]; other site 340322000234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000235 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 340322000236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000237 biotin synthase; Validated; Region: PRK06256 340322000238 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 340322000239 FeS/SAM binding site; other site 340322000240 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 340322000241 CHY zinc finger; Region: zf-CHY; cl14900 340322000242 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 340322000243 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...; Region: Bact_CD; cd01293 340322000244 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 340322000245 active site 340322000246 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 340322000247 NAD-dependent deacetylase; Provisional; Region: PRK05333 340322000248 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 340322000249 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 340322000250 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 340322000251 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 340322000252 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000253 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 340322000254 alpha-gamma subunit interface [polypeptide binding]; other site 340322000255 beta-gamma subunit interface [polypeptide binding]; other site 340322000256 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...; Region: Urease_beta; cd00407 340322000257 gamma-beta subunit interface [polypeptide binding]; other site 340322000258 alpha-beta subunit interface [polypeptide binding]; other site 340322000259 urease subunit alpha; Reviewed; Region: ureC; PRK13207 340322000260 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 340322000261 subunit interactions [polypeptide binding]; other site 340322000262 active site 340322000263 flap region; other site 340322000264 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 340322000265 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 C-...; Region: UreE; cd00571 340322000266 dimer interface [polypeptide binding]; other site 340322000267 catalytic residues [active] 340322000268 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 340322000269 UreF; Region: UreF; pfam01730 340322000270 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 340322000271 UreD urease accessory protein; Region: UreD; cl00530 340322000272 HSP90 family protein; Provisional; Region: PRK14083 340322000273 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; cl00075 340322000274 AMP nucleosidase; Region: AMP-nucleosdse; TIGR01717 340322000275 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 340322000276 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 340322000277 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 340322000278 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 340322000279 NAD binding site [chemical binding]; other site 340322000280 catalytic Zn binding site [ion binding]; other site 340322000281 structural Zn binding site [ion binding]; other site 340322000282 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000283 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000284 DNA binding site [nucleotide binding] 340322000285 domain linker motif; other site 340322000286 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 340322000287 dimerization interface [polypeptide binding]; other site 340322000288 ligand binding site [chemical binding]; other site 340322000289 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 340322000290 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 340322000291 NAD binding site [chemical binding]; other site 340322000292 dimerization interface [polypeptide binding]; other site 340322000293 product binding site; other site 340322000294 substrate binding site [chemical binding]; other site 340322000295 zinc binding site [ion binding]; other site 340322000296 catalytic residues [active] 340322000297 Citrate transporter; Region: CitMHS; pfam03600 340322000298 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; cl09110 340322000299 Integrase core domain; Region: rve; cl01316 340322000300 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 340322000301 Multicopper oxidase; Region: Cu-oxidase; cl14658 340322000302 Multicopper oxidase; Region: Cu-oxidase; cl14658 340322000303 Multicopper oxidase; Region: Cu-oxidase; cl14658 340322000304 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322000305 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 340322000306 active site 340322000307 phosphorylation site [posttranslational modification] 340322000308 intermolecular recognition site; other site 340322000309 dimerization interface [polypeptide binding]; other site 340322000310 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...; Region: trans_reg_C; cd00383 340322000311 DNA binding site [nucleotide binding] 340322000312 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 connected by an extended linker. The...; Region: HAMP; cl01054 340322000313 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 trans-...; Region: HisKA; cd00082 340322000314 dimer interface [polypeptide binding]; other site 340322000315 phosphorylation site [posttranslational modification] 340322000316 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 340322000317 ATP binding site [chemical binding]; other site 340322000318 Mg2+ binding site [ion binding]; other site 340322000319 G-X-G motif; other site 340322000320 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 340322000321 metal-binding site [ion binding] 340322000322 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340322000323 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000324 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; cl11391 340322000325 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 340322000326 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 340322000327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000328 Integrase core domain; Region: rve; cl01316 340322000329 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 340322000330 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000331 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; cl11391 340322000332 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 340322000333 metal-binding site [ion binding] 340322000334 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000335 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322000336 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 340322000337 catalytic residues [active] 340322000338 catalytic nucleophile [active] 340322000339 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322000340 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322000341 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322000342 Synaptic Site I dimer interface [polypeptide binding]; other site 340322000343 DNA binding site [nucleotide binding] 340322000344 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 340322000345 DNA-binding interface [nucleotide binding]; DNA binding site 340322000346 Vitamin K epoxide reductase family; Region: VKOR; cl01729 340322000347 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322000348 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 340322000349 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 340322000350 dimerization interface [polypeptide binding]; other site 340322000351 putative DNA binding site [nucleotide binding]; other site 340322000352 putative Zn2+ binding site [ion binding]; other site 340322000353 Peptidase family M23; Region: Peptidase_M23; pfam01551 340322000354 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 340322000355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 340322000356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 340322000357 Copper resistance protein D; Region: CopD; cl00563 340322000358 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 340322000359 Copper resistance protein CopC; Region: CopC; cl01012 340322000360 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 340322000361 dimerization interface [polypeptide binding]; other site 340322000362 putative DNA binding site [nucleotide binding]; other site 340322000363 putative Zn2+ binding site [ion binding]; other site 340322000364 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 340322000365 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000366 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; cl11391 340322000367 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 340322000368 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340322000369 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322000370 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; cl11391 340322000371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 340322000372 Integrase core domain; Region: rve; cl01316 340322000373 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 340322000374 putative transposase OrfB; Reviewed; Region: PHA02517 340322000375 Integrase core domain; Region: rve; cl01316 340322000376 putative transposase OrfB; Reviewed; Region: PHA02517 340322000377 Integrase core domain; Region: rve; cl01316 340322000378 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 340322000379 Trp repressor protein; Region: Trp_repressor; cl01121 340322000380 Integrase core domain; Region: rve; cl01316 340322000381 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; cl01116 340322000382 Cadmium resistance transporter; Region: Cad; cl04177 340322000383 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 340322000384 dimerization interface [polypeptide binding]; other site 340322000385 putative DNA binding site [nucleotide binding]; other site 340322000386 putative Zn2+ binding site [ion binding]; other site 340322000387 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 340322000388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000389 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322000390 FeoA domain; Region: FeoA; cl00838 340322000391 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 340322000392 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322000393 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 340322000394 catalytic residues [active] 340322000395 catalytic nucleophile [active] 340322000396 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322000397 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322000398 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322000399 Synaptic Site I dimer interface [polypeptide binding]; other site 340322000400 DNA binding site [nucleotide binding] 340322000401 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 340322000402 DNA-binding interface [nucleotide binding]; DNA binding site 340322000403 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322000404 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 340322000405 catalytic residues [active] 340322000406 catalytic nucleophile [active] 340322000407 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322000408 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322000409 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322000410 Synaptic Site I dimer interface [polypeptide binding]; other site 340322000411 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; cl01116 340322000412 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 340322000413 dimerization interface [polypeptide binding]; other site 340322000414 putative DNA binding site [nucleotide binding]; other site 340322000415 putative Zn2+ binding site [ion binding]; other site 340322000416 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 340322000417 Cadmium resistance transporter; Region: Cad; cl04177 340322000418 mercuric reductase; Region: MerA; TIGR02053 340322000419 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322000420 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322000421 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 340322000422 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 340322000423 DNA binding residues [nucleotide binding] 340322000424 dimer interface [polypeptide binding]; other site 340322000425 metal binding site [ion binding]; metal-binding site 340322000426 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 340322000427 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...; Region: Aldo_ket_red; cd06660 340322000428 catalytic tetrad [active] 340322000429 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...; Region: Aldo_ket_red; cd06660 340322000430 active site 340322000431 Uncharacterized conserved protein [Function unknown]; Region: COG4127 340322000432 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...; Region: AAA; cd00009 340322000433 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 340322000434 Walker A motif; other site 340322000435 ATP binding site [chemical binding]; other site 340322000436 Walker B motif; other site 340322000437 arginine finger; other site 340322000438 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 340322000439 Integrase core domain; Region: rve; cl01316 340322000440 Proline dehydrogenase; Region: Pro_dh; cl03282 340322000441 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 340322000442 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322000443 NAD(P) binding site [chemical binding]; other site 340322000444 catalytic residues [active] 340322000445 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 340322000446 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...; Region: Aldo_ket_red; cd06660 340322000447 active site 340322000448 catalytic tetrad [active] 340322000449 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; cl09110 340322000450 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 340322000451 amidohydrolase; Region: amidohydrolases; TIGR01891 340322000452 metal binding site [ion binding]; metal-binding site 340322000453 Domain of unknown function DUF; Region: DUF202; cl09954 340322000454 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 340322000455 non-specific DNA binding site [nucleotide binding]; other site 340322000456 salt bridge; other site 340322000457 sequence-specific DNA binding site [nucleotide binding]; other site 340322000458 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322000459 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000460 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 340322000461 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 340322000462 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 340322000463 active site 340322000464 motif I; other site 340322000465 motif II; other site 340322000466 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 340322000467 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 340322000468 catalytic core [active] 340322000469 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 340322000470 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 340322000471 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 340322000472 polyol permease family; Region: 2A0118; TIGR00897 340322000473 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000474 putative substrate translocation pore; other site 340322000475 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322000476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000477 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 340322000478 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340322000479 D-xylulose kinase; Region: XylB; TIGR01312 340322000480 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 340322000481 Pantoate-beta-alanine ligase; Region: PanC; cd00560 340322000482 pantoate--beta-alanine ligase; Region: panC; TIGR00018 340322000483 active site 340322000484 ATP-binding site [chemical binding]; other site 340322000485 pantoate-binding site; other site 340322000486 HXXH motif; other site 340322000487 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 340322000488 oligomerization interface [polypeptide binding]; other site 340322000489 active site 340322000490 metal binding site [ion binding]; metal-binding site 340322000491 Fic/DOC family; Region: Fic; cl00960 340322000492 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000493 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 340322000494 active site 340322000495 DNA binding site [nucleotide binding] 340322000496 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 340322000497 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; cl12031 340322000498 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 340322000499 substrate binding pocket [chemical binding]; other site 340322000500 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 340322000501 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 340322000502 motif II; other site 340322000503 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 340322000504 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 340322000505 trimer interface [polypeptide binding]; other site 340322000506 putative metal binding site [ion binding]; other site 340322000507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000508 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340322000509 enterobactin exporter EntS; Provisional; Region: PRK10489 340322000510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000511 putative substrate translocation pore; other site 340322000512 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 340322000513 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 340322000514 DXD motif; other site 340322000515 Predicted membrane protein (DUF2079); Region: DUF2079; cl01374 340322000516 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 340322000517 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 340322000518 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 340322000519 Entner-Doudoroff aldolase; Region: eda; TIGR01182 340322000520 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 340322000521 active site 340322000522 intersubunit interface [polypeptide binding]; other site 340322000523 catalytic residue [active] 340322000524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000525 D-galactonate transporter; Region: 2A0114; TIGR00893 340322000526 putative substrate translocation pore; other site 340322000527 Predicted kinase [General function prediction only]; Region: COG0645 340322000528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322000529 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 340322000530 Predicted permeases [General function prediction only]; Region: RarD; COG2962 340322000531 Predicted membrane protein [Function unknown]; Region: COG2860 340322000532 UPF0126 domain; Region: UPF0126; pfam03458 340322000533 META domain; Region: META; cl01245 340322000534 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 340322000535 tetramerization interface [polypeptide binding]; other site 340322000536 active site 340322000537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 340322000538 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 340322000539 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 340322000540 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 340322000541 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 340322000542 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 340322000543 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 340322000544 putative Mg++ binding site [ion binding]; other site 340322000545 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 340322000546 nucleotide binding region [chemical binding]; other site 340322000547 ATP-binding site [chemical binding]; other site 340322000548 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 340322000549 maltose O-acetyltransferase; Provisional; Region: PRK10092 340322000550 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 340322000551 active site 340322000552 substrate binding site [chemical binding]; other site 340322000553 trimer interface [polypeptide binding]; other site 340322000554 CoA binding site [chemical binding]; other site 340322000555 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 340322000556 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 340322000557 LysE type translocator; Region: LysE; cl00565 340322000558 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 340322000559 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 340322000560 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 340322000561 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 340322000562 DNA binding site [nucleotide binding] 340322000563 active site 340322000564 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 340322000565 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 340322000566 homotrimer interaction site [polypeptide binding]; other site 340322000567 putative active site [active] 340322000568 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 340322000569 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 340322000570 active site 340322000571 Zn binding site [ion binding]; other site 340322000572 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 340322000573 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 340322000574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322000575 DNA-binding site [nucleotide binding]; DNA binding site 340322000576 UTRA domain; Region: UTRA; cl06649 340322000577 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 340322000578 substrate binding site [chemical binding]; other site 340322000579 ATP binding site [chemical binding]; other site 340322000580 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 340322000581 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322000582 tetrameric interface [polypeptide binding]; other site 340322000583 NAD binding site [chemical binding]; other site 340322000584 catalytic residues [active] 340322000585 KduI/IolB family; Region: KduI; cl01508 340322000586 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 340322000587 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 340322000588 PYR/PP interface [polypeptide binding]; other site 340322000589 dimer interface [polypeptide binding]; other site 340322000590 TPP binding site [chemical binding]; other site 340322000591 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 340322000592 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 340322000593 TPP-binding site; other site 340322000594 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322000595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000596 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322000597 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 340322000598 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000599 putative transporter; Provisional; Region: PRK10504 340322000600 putative substrate translocation pore; other site 340322000601 putative oxidoreductase; Provisional; Region: PRK11579 340322000602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000603 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322000604 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000605 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000606 DNA binding site [nucleotide binding] 340322000607 domain linker motif; other site 340322000608 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 340322000609 dimerization interface [polypeptide binding]; other site 340322000610 ligand binding site [chemical binding]; other site 340322000611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000612 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322000613 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322000614 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322000615 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 protein...; Region: CSP_CDS; cd04458 340322000616 DNA-binding site [nucleotide binding]; DNA binding site 340322000617 RNA-binding motif; other site 340322000618 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 340322000619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322000620 dimer interface [polypeptide binding]; other site 340322000621 conserved gate region; other site 340322000622 putative PBP binding loops; other site 340322000623 ABC-ATPase subunit interface; other site 340322000624 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 340322000625 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 340322000626 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 340322000627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322000628 Walker A/P-loop; other site 340322000629 ATP binding site [chemical binding]; other site 340322000630 Q-loop/lid; other site 340322000631 ABC transporter signature motif; other site 340322000632 Walker B; other site 340322000633 D-loop; other site 340322000634 H-loop/switch region; other site 340322000635 TOBE domain; Region: TOBE_2; cl01440 340322000636 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 340322000637 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 340322000638 motif II; other site 340322000639 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000640 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000641 DNA binding site [nucleotide binding] 340322000642 domain linker motif; other site 340322000643 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 340322000644 dimerization interface [polypeptide binding]; other site 340322000645 ligand binding site [chemical binding]; other site 340322000646 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 340322000647 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; cl12011 340322000648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322000649 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322000650 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322000651 DNA binding site [nucleotide binding] 340322000652 domain linker motif; other site 340322000653 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 340322000654 dimerization interface [polypeptide binding]; other site 340322000655 ligand binding site [chemical binding]; other site 340322000656 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 340322000657 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000658 putative substrate translocation pore; other site 340322000659 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000660 PAS fold; Region: PAS_4; pfam08448 340322000661 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 340322000662 putative active site [active] 340322000663 heme pocket [chemical binding]; other site 340322000664 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 340322000665 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 N-...; Region: GltS; cd00713 340322000666 active site 340322000667 dimer interface [polypeptide binding]; other site 340322000668 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 340322000669 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...; Region: GltS_FMN; cd02808 340322000670 active site 340322000671 FMN binding site [chemical binding]; other site 340322000672 substrate binding site [chemical binding]; other site 340322000673 3Fe-4S cluster binding site [ion binding]; other site 340322000674 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 340322000675 domain interface; other site 340322000676 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 340322000677 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322000678 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 340322000679 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 340322000680 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 340322000681 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 340322000682 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 340322000683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000684 NAD(P) binding site [chemical binding]; other site 340322000685 active site 340322000686 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340322000687 FAD binding domain; Region: FAD_binding_4; pfam01565 340322000688 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 340322000689 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 340322000690 GtrA-like protein; Region: GtrA; cl00971 340322000691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 340322000692 MOSC domain; Region: MOSC; pfam03473 340322000693 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322000694 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 340322000695 active site 340322000696 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 340322000697 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 340322000698 Walker A/P-loop; other site 340322000699 ATP binding site [chemical binding]; other site 340322000700 Q-loop/lid; other site 340322000701 ABC transporter signature motif; other site 340322000702 Walker B; other site 340322000703 D-loop; other site 340322000704 H-loop/switch region; other site 340322000705 ABC-2 type transporter; Region: ABC2_membrane; cl11417 340322000706 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 340322000707 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 340322000708 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 340322000709 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 340322000710 NAD(P) binding site [chemical binding]; other site 340322000711 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 340322000712 hypothetical protein; Provisional; Region: PRK11568 340322000713 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK05597 340322000714 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...; Region: ThiF_MoeB_HesA_family; cd00757 340322000715 ATP binding site [chemical binding]; other site 340322000716 substrate interface [chemical binding]; other site 340322000717 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 340322000718 active site residue [active] 340322000719 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 340322000720 MoaE homodimer interface [polypeptide binding]; other site 340322000721 MoaD interaction [polypeptide binding]; other site 340322000722 active site residues [active] 340322000723 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 340322000724 MPT binding site; other site 340322000725 trimer interface [polypeptide binding]; other site 340322000726 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...; Region: MoaC_PE; cd01420 340322000727 trimer interface [polypeptide binding]; other site 340322000728 dimer interface [polypeptide binding]; other site 340322000729 putative active site [active] 340322000730 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 340322000731 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 340322000732 dimer interface [polypeptide binding]; other site 340322000733 putative functional site; other site 340322000734 putative MPT binding site; other site 340322000735 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 340322000736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322000737 dimer interface [polypeptide binding]; other site 340322000738 conserved gate region; other site 340322000739 putative PBP binding loops; other site 340322000740 ABC-ATPase subunit interface; other site 340322000741 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 340322000742 Ubiquitin-like proteins; Region: UBQ; cl00155 340322000743 charged pocket; other site 340322000744 hydrophobic patch; other site 340322000745 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 340322000746 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 340322000747 Walker A/P-loop; other site 340322000748 ATP binding site [chemical binding]; other site 340322000749 Q-loop/lid; other site 340322000750 ABC transporter signature motif; other site 340322000751 Walker B; other site 340322000752 D-loop; other site 340322000753 H-loop/switch region; other site 340322000754 Membrane protein of unknown function; Region: DUF360; cl00850 340322000755 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 340322000756 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 340322000757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322000758 homodimer interface [polypeptide binding]; other site 340322000759 catalytic residue [active] 340322000760 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 340322000761 MgtE intracellular N domain; Region: MgtE_N; cl15244 340322000762 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 340322000763 Divalent cation transporter; Region: MgtE; cl00786 340322000764 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 340322000765 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 340322000766 transmembrane helices; other site 340322000767 prephenate dehydrogenase; Validated; Region: PRK06545 340322000768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000769 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 340322000770 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 340322000771 nucleoside/Zn binding site; other site 340322000772 dimer interface [polypeptide binding]; other site 340322000773 catalytic motif [active] 340322000774 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 340322000775 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 340322000776 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 340322000777 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322000778 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322000779 Q-loop/lid; other site 340322000780 ABC transporter signature motif; other site 340322000781 Walker B; other site 340322000782 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322000783 active site 340322000784 HIGH motif; other site 340322000785 nucleotide binding site [chemical binding]; other site 340322000786 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322000787 active site 340322000788 KMSKS motif; other site 340322000789 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 340322000790 putative active site [active] 340322000791 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 340322000792 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322000793 catalytic residue [active] 340322000794 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 340322000795 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 340322000796 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...; Region: AAA; cd00009 340322000797 Walker A motif; other site 340322000798 ATP binding site [chemical binding]; other site 340322000799 Walker B motif; other site 340322000800 arginine finger; other site 340322000801 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 340322000802 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 340322000803 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 340322000804 recombination protein RecR; Reviewed; Region: recR; PRK00076 340322000805 RecR protein; Region: RecR; pfam02132 340322000806 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 340322000807 putative active site [active] 340322000808 putative metal-binding site [ion binding]; other site 340322000809 tetramer interface [polypeptide binding]; other site 340322000810 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 340322000811 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322000812 Phosphopantetheine attachment site; Region: PP-binding; cl09936 340322000813 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 340322000814 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 340322000815 putative CoA binding site [chemical binding]; other site 340322000816 putative trimer interface [polypeptide binding]; other site 340322000817 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 340322000818 putative trimer interface [polypeptide binding]; other site 340322000819 putative CoA binding site [chemical binding]; other site 340322000820 Predicted membrane protein [Function unknown]; Region: COG2311 340322000821 Protein of unknown function (DUF418); Region: DUF418; cl12135 340322000822 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 340322000823 catalytic triad [active] 340322000824 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 340322000825 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322000826 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 340322000827 DNA polymerase III subunit epsilon; Validated; Region: PRK05601 340322000828 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 340322000829 active site 340322000830 substrate binding site [chemical binding]; other site 340322000831 2-isopropylmalate synthase; Validated; Region: PRK03739 340322000832 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 340322000833 active site 340322000834 catalytic residues [active] 340322000835 metal binding site [ion binding]; metal-binding site 340322000836 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 340322000837 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322000838 aspartate kinase; Reviewed; Region: PRK06635 340322000839 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 340322000840 putative nucleotide binding site [chemical binding]; other site 340322000841 putative catalytic residues [active] 340322000842 putative Mg ion binding site [ion binding]; other site 340322000843 putative aspartate binding site [chemical binding]; other site 340322000844 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 340322000845 putative allosteric regulatory site; other site 340322000846 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 340322000847 putative allosteric regulatory residue; other site 340322000848 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 340322000849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000850 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 340322000851 RNA polymerase sigma factor; Provisional; Region: PRK12535 340322000852 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322000853 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...; Region: Sigma70_r4; cl01055 340322000854 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 340322000855 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 340322000856 heme binding pocket [chemical binding]; other site 340322000857 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 340322000858 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000859 AzlC protein; Region: AzlC; cl00570 340322000860 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 340322000861 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 340322000862 dimerization interface [polypeptide binding]; other site 340322000863 putative DNA binding site [nucleotide binding]; other site 340322000864 putative Zn2+ binding site [ion binding]; other site 340322000865 Membrane transport protein; Region: Mem_trans; cl09117 340322000866 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322000867 Active site [active] 340322000868 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322000869 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 340322000870 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 340322000871 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 340322000872 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 340322000873 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 340322000874 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 340322000875 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 340322000876 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 340322000877 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 340322000878 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 340322000879 Predicted membrane protein [Function unknown]; Region: COG1511 340322000880 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 340322000881 Malonate transporter MadL subunit; Region: MadL; cl04273 340322000882 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 340322000883 dimerization interface [polypeptide binding]; other site 340322000884 Acyl transferase domain; Region: Acyl_transf_1; cl08282 340322000885 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 340322000886 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 340322000887 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322000888 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 340322000889 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322000890 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 340322000891 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 340322000892 Coenzyme A transferase; Region: CoA_trans; cl00773 340322000893 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322000894 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 340322000895 active site 340322000896 phosphorylation site [posttranslational modification] 340322000897 intermolecular recognition site; other site 340322000898 dimerization interface [polypeptide binding]; other site 340322000899 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...; Region: trans_reg_C; cd00383 340322000900 DNA binding site [nucleotide binding] 340322000901 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 connected by an extended linker. The...; Region: HAMP; cd06225 340322000902 dimerization interface [polypeptide binding]; other site 340322000903 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 trans-...; Region: HisKA; cd00082 340322000904 dimer interface [polypeptide binding]; other site 340322000905 phosphorylation site [posttranslational modification] 340322000906 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 340322000907 ATP binding site [chemical binding]; other site 340322000908 Mg2+ binding site [ion binding]; other site 340322000909 G-X-G motif; other site 340322000910 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340322000911 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 340322000912 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 340322000913 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322000914 putative active site [active] 340322000915 putative metal binding site [ion binding]; other site 340322000916 GatB domain; Region: GatB_Yqey; cl11497 340322000917 Transglycosylase; Region: Transgly; cl07896 340322000918 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 340322000919 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 340322000920 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 340322000921 Transcription factor WhiB; Region: Whib; pfam02467 340322000922 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 340322000923 homotrimer interaction site [polypeptide binding]; other site 340322000924 putative active site [active] 340322000925 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322000926 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322000927 putative substrate translocation pore; other site 340322000928 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 340322000929 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322000930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000931 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322000932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322000933 NAD(P) binding site [chemical binding]; other site 340322000934 active site 340322000935 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...; Region: metallo-dependent_hydrolases; cd01292 340322000936 active site 340322000937 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 340322000938 acyl-coenzyme A oxidase; Region: PLN02526 340322000939 active site 340322000940 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 340322000941 putative active site [active] 340322000942 putative catalytic site [active] 340322000943 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322000944 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 340322000945 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 340322000946 ligand binding site [chemical binding]; other site 340322000947 flexible hinge region; other site 340322000948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322000949 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 340322000950 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 340322000951 minor groove reading motif; other site 340322000952 helix-hairpin-helix signature motif; other site 340322000953 substrate binding pocket [chemical binding]; other site 340322000954 active site 340322000955 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...; Region: TlpA_like_family; cd02966 340322000956 catalytic residues [active] 340322000957 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 340322000958 putative active site [active] 340322000959 putative CoA binding site [chemical binding]; other site 340322000960 nudix motif; other site 340322000961 metal binding site [ion binding]; metal-binding site 340322000962 Colicin V production protein; Region: Colicin_V; cl00567 340322000963 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...; Region: Tryp_SPc; cl00149 340322000964 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; cl12031 340322000965 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322000966 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 340322000967 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; cl11391 340322000968 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 340322000969 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 340322000970 helicase/secretion neighborhood ATPase; Region: heli_sec_ATPase; TIGR03819 340322000971 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...; Region: VirB11-like_ATPase; cd01130 340322000972 ATP binding site [chemical binding]; other site 340322000973 Walker A motif; other site 340322000974 hexamer interface [polypeptide binding]; other site 340322000975 Walker B motif; other site 340322000976 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 340322000977 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 340322000978 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 340322000979 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 340322000980 ATP binding site [chemical binding]; other site 340322000981 putative Mg++ binding site [ion binding]; other site 340322000982 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 340322000983 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 protein...; Region: CSP_CDS; cd04458 340322000984 DNA-binding site [nucleotide binding]; DNA binding site 340322000985 RNA-binding motif; other site 340322000986 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 340322000987 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 340322000988 active site 340322000989 interdomain interaction site; other site 340322000990 putative metal-binding site [ion binding]; other site 340322000991 nucleotide binding site [chemical binding]; other site 340322000992 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...; Region: TOP1Ac; cl11986 340322000993 domain I; other site 340322000994 phosphate binding site [ion binding]; other site 340322000995 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...; Region: TOP1Ac; cd00186 340322000996 domain II; other site 340322000997 domain III; other site 340322000998 nucleotide binding site [chemical binding]; other site 340322000999 DNA binding groove [nucleotide binding] 340322001000 catalytic site [active] 340322001001 domain IV; other site 340322001002 YhhN-like protein; Region: YhhN; cl01505 340322001003 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 connected by an extended linker. The...; Region: HAMP; cd06225 340322001004 dimerization interface [polypeptide binding]; other site 340322001005 cyclase homology domain; Region: CHD; cd07302 340322001006 nucleotidyl binding site; other site 340322001007 metal binding site [ion binding]; metal-binding site 340322001008 dimer interface [polypeptide binding]; other site 340322001009 DNA polymerase III subunit delta'; Validated; Region: PRK07940 340322001010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322001011 Walker A motif; other site 340322001012 ATP binding site [chemical binding]; other site 340322001013 Walker B motif; other site 340322001014 arginine finger; other site 340322001015 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 340322001016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322001017 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 340322001018 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 340322001019 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 340322001020 active site 340322001021 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 340322001022 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 340322001023 mycothiol-dependent formaldehyde dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 340322001024 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 340322001025 NAD binding site [chemical binding]; other site 340322001026 catalytic Zn binding site [ion binding]; other site 340322001027 substrate binding site [chemical binding]; other site 340322001028 structural Zn binding site [ion binding]; other site 340322001029 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322001030 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 340322001031 classical (c) SDRs; Region: SDR_c; cd05233 340322001032 NAD(P) binding site [chemical binding]; other site 340322001033 active site 340322001034 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340322001035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001036 NAD(P) binding site [chemical binding]; other site 340322001037 active site 340322001038 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 340322001039 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 340322001040 Ligand binding site [chemical binding]; other site 340322001041 Putative Catalytic site [active] 340322001042 DXD motif; other site 340322001043 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 340322001044 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322001045 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 340322001046 Probable Catalytic site [active] 340322001047 metal binding site [ion binding]; metal-binding site 340322001048 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 340322001049 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 340322001050 putative active site [active] 340322001051 putative metal binding site [ion binding]; other site 340322001052 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 340322001053 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 340322001054 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 340322001055 putative NAD(P) binding site [chemical binding]; other site 340322001056 putative substrate binding site [chemical binding]; other site 340322001057 catalytic Zn binding site [ion binding]; other site 340322001058 structural Zn binding site [ion binding]; other site 340322001059 dimer interface [polypeptide binding]; other site 340322001060 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 340322001061 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 340322001062 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 340322001063 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 340322001064 substrate binding site [chemical binding]; other site 340322001065 tetramer interface [polypeptide binding]; other site 340322001066 Cupin domain; Region: Cupin_2; cl09118 340322001067 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 340322001068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001069 NAD(P) binding site [chemical binding]; other site 340322001070 active site 340322001071 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 340322001072 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 340322001073 NAD binding site [chemical binding]; other site 340322001074 substrate binding site [chemical binding]; other site 340322001075 homodimer interface [polypeptide binding]; other site 340322001076 active site 340322001077 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...; Region: NADH_oxidase; cd03370 340322001078 dimer interface [polypeptide binding]; other site 340322001079 FMN binding site [chemical binding]; other site 340322001080 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322001081 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...; Region: FhuD; cd01146 340322001082 siderophore binding site; other site 340322001083 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 340322001084 Zn binding site [ion binding]; other site 340322001085 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 340322001086 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; cl12031 340322001087 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 340322001088 Fusaric acid resistance protein family; Region: FUSC; pfam04632 340322001089 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 340322001090 Predicted esterase [General function prediction only]; Region: COG0627 340322001091 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 340322001092 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 340322001093 active site 340322001094 homodimer interface [polypeptide binding]; other site 340322001095 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 340322001096 PEP-CTERM/exosortase 1-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 340322001097 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 340322001098 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 340322001099 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 340322001100 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 340322001101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001102 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 340322001103 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 340322001104 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 340322001105 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322001106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322001107 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322001108 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 340322001109 active site 340322001110 tetramer interface [polypeptide binding]; other site 340322001111 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 340322001112 putative deacylase active site [active] 340322001113 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 340322001114 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 340322001115 Domain of unknown function (DUF955); Region: DUF955; cl01076 340322001116 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 340322001117 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 340322001118 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 340322001119 putative Iron-sulfur protein interface [polypeptide binding]; other site 340322001120 proximal heme binding site [chemical binding]; other site 340322001121 distal heme binding site [chemical binding]; other site 340322001122 putative dimer interface [polypeptide binding]; other site 340322001123 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 340322001124 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322001125 domain; Region: Succ_DH_flav_C; pfam02910 340322001126 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 340322001127 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...; Region: TroA-like; cl00262 340322001128 intersubunit interface [polypeptide binding]; other site 340322001129 Uncharacterized conserved protein [Function unknown]; Region: COG4127 340322001130 Restriction endonuclease; Region: Mrr_cat; cl00747 340322001131 Predicted membrane protein [Function unknown]; Region: COG2733 340322001132 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 340322001133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322001134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322001135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322001136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001137 putative substrate translocation pore; other site 340322001138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001139 putative substrate translocation pore; other site 340322001140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001141 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322001142 putative substrate translocation pore; other site 340322001143 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 340322001144 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 340322001145 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 340322001146 putative active site [active] 340322001147 putative substrate binding site [chemical binding]; other site 340322001148 putative cosubstrate binding site; other site 340322001149 catalytic site [active] 340322001150 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 340322001151 intersubunit interface [polypeptide binding]; other site 340322001152 active site 340322001153 catalytic residue [active] 340322001154 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 340322001155 putative homotetramer interface [polypeptide binding]; other site 340322001156 putative homodimer interface [polypeptide binding]; other site 340322001157 putative allosteric switch controlling residues; other site 340322001158 putative metal binding site [ion binding]; other site 340322001159 putative homodimer-homodimer interface [polypeptide binding]; other site 340322001160 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340322001161 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 340322001162 metal-binding site [ion binding] 340322001163 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322001164 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; cl11391 340322001165 Htaa; Region: HtaA; pfam04213 340322001166 Htaa; Region: HtaA; pfam04213 340322001167 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 340322001168 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...; Region: TroA-like; cl00262 340322001169 intersubunit interface [polypeptide binding]; other site 340322001170 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322001171 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322001172 dimer interface [polypeptide binding]; other site 340322001173 putative PBP binding regions; other site 340322001174 ABC-ATPase subunit interface; other site 340322001175 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 340322001176 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322001177 Walker A/P-loop; other site 340322001178 ATP binding site [chemical binding]; other site 340322001179 Q-loop/lid; other site 340322001180 ABC transporter signature motif; other site 340322001181 Walker B; other site 340322001182 D-loop; other site 340322001183 H-loop/switch region; other site 340322001184 Htaa; Region: HtaA; pfam04213 340322001185 Htaa; Region: HtaA; pfam04213 340322001186 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 340322001187 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 340322001188 FAD binding domain; Region: FAD_binding_4; pfam01565 340322001189 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 340322001190 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 340322001191 Domain of unknown function (DU1801); Region: DUF1801; cl01838 340322001192 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 340322001193 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322001194 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 340322001195 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 340322001196 putative ADP-binding pocket [chemical binding]; other site 340322001197 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 340322001198 catalytic core [active] 340322001199 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 340322001200 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 340322001201 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 trans-...; Region: HisKA; cd00082 340322001202 dimer interface [polypeptide binding]; other site 340322001203 phosphorylation site [posttranslational modification] 340322001204 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 340322001205 ATP binding site [chemical binding]; other site 340322001206 Mg2+ binding site [ion binding]; other site 340322001207 G-X-G motif; other site 340322001208 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322001209 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 340322001210 active site 340322001211 phosphorylation site [posttranslational modification] 340322001212 intermolecular recognition site; other site 340322001213 dimerization interface [polypeptide binding]; other site 340322001214 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...; Region: trans_reg_C; cd00383 340322001215 DNA binding site [nucleotide binding] 340322001216 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340322001217 FtsX-like permease family; Region: FtsX; pfam02687 340322001218 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340322001219 FtsX-like permease family; Region: FtsX; pfam02687 340322001220 exopolyphosphatase; Region: exo_poly_only; TIGR03706 340322001221 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 340322001222 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 340322001223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001224 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 340322001225 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; cl11391 340322001226 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 340322001227 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322001228 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 340322001229 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 340322001230 tRNA; other site 340322001231 putative tRNA binding site [nucleotide binding]; other site 340322001232 putative NADP binding site [chemical binding]; other site 340322001233 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 340322001234 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 340322001235 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; cl03189 340322001236 domain interfaces; other site 340322001237 active site 340322001238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322001239 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322001240 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 340322001241 dimerization interface [polypeptide binding]; other site 340322001242 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001243 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322001244 putative substrate translocation pore; other site 340322001245 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 D-arabino-6-...; Region: AP2Ec; cl12060 340322001246 AP (apurinic/apyrimidinic) site pocket; other site 340322001247 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 340322001248 DNA interaction; other site 340322001249 Metal-binding active site; metal-binding site 340322001250 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 340322001251 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 340322001252 active site 340322001253 metal binding site [ion binding]; metal-binding site 340322001254 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 340322001255 active site 340322001256 Fe binding site [ion binding]; other site 340322001257 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 340322001258 active site 340322001259 trimer interface [polypeptide binding]; other site 340322001260 dimer interface [polypeptide binding]; other site 340322001261 quinate/shikimate dehydrogenase; Provisional; Region: PRK14027 340322001262 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 340322001263 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 340322001264 shikimate binding site; other site 340322001265 NAD(P) binding site [chemical binding]; other site 340322001266 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; cl00364 340322001267 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 340322001268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322001269 Walker A/P-loop; other site 340322001270 ATP binding site [chemical binding]; other site 340322001271 Q-loop/lid; other site 340322001272 ABC transporter signature motif; other site 340322001273 Walker B; other site 340322001274 D-loop; other site 340322001275 H-loop/switch region; other site 340322001276 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 340322001277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322001278 dimer interface [polypeptide binding]; other site 340322001279 conserved gate region; other site 340322001280 putative PBP binding loops; other site 340322001281 ABC-ATPase subunit interface; other site 340322001282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 340322001283 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 340322001284 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 340322001285 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 340322001286 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...; Region: HemD; cd06578 340322001287 active site 340322001288 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 340322001289 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 340322001290 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 340322001291 dimer interface [polypeptide binding]; other site 340322001292 active site 340322001293 Schiff base residues; other site 340322001294 putative mercuric reductase; Provisional; Region: PRK13748 340322001295 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340322001296 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322001297 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...; Region: URO-D; cd00717 340322001298 substrate binding site [chemical binding]; other site 340322001299 active site 340322001300 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322001301 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 340322001302 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 340322001303 inhibitor-cofactor binding pocket; inhibition site 340322001304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322001305 catalytic residue [active] 340322001306 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 340322001307 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 340322001308 catalytic core [active] 340322001309 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...; Region: TlpA_like_family; cd02966 340322001310 catalytic residues [active] 340322001311 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 340322001312 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 340322001313 ResB-like family; Region: ResB; pfam05140 340322001314 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 340322001315 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 340322001316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322001317 dimer interface [polypeptide binding]; other site 340322001318 conserved gate region; other site 340322001319 putative PBP binding loops; other site 340322001320 ABC-ATPase subunit interface; other site 340322001321 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 340322001322 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 340322001323 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 340322001324 Walker A/P-loop; other site 340322001325 ATP binding site [chemical binding]; other site 340322001326 Q-loop/lid; other site 340322001327 ABC transporter signature motif; other site 340322001328 Walker B; other site 340322001329 D-loop; other site 340322001330 H-loop/switch region; other site 340322001331 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340322001332 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...; Region: APP_MetAP; cd01066 340322001333 active site 340322001334 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 340322001335 homotrimer interaction site [polypeptide binding]; other site 340322001336 putative active site [active] 340322001337 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 340322001338 putative DNA binding site [nucleotide binding]; other site 340322001339 dimerization interface [polypeptide binding]; other site 340322001340 putative Zn2+ binding site [ion binding]; other site 340322001341 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 340322001342 UbiA prenyltransferase family; Region: UbiA; cl00337 340322001343 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 340322001344 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322001345 DoxX; Region: DoxX; cl00976 340322001346 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322001347 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 340322001348 dimer interface [polypeptide binding]; other site 340322001349 NADP binding site [chemical binding]; other site 340322001350 catalytic residues [active] 340322001351 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 340322001352 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 340322001353 putative active site [active] 340322001354 catalytic residue [active] 340322001355 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 340322001356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322001357 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 340322001358 putative dimerization interface [polypeptide binding]; other site 340322001359 putative substrate binding pocket [chemical binding]; other site 340322001360 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 340322001361 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 340322001362 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...; Region: metallo-dependent_hydrolases; cl00281 340322001363 active site 340322001364 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 340322001365 Phosphate transporter family; Region: PHO4; cl00396 340322001366 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 340322001367 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322001368 catalytic residues [active] 340322001369 catalytic nucleophile [active] 340322001370 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322001371 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322001372 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322001373 Synaptic Site I dimer interface [polypeptide binding]; other site 340322001374 DNA binding site [nucleotide binding] 340322001375 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 340322001376 DNA-binding interface [nucleotide binding]; DNA binding site 340322001377 Protein of unknown function DUF262; Region: DUF262; cl14890 340322001378 Protein of unknown function DUF262; Region: DUF262; cl14890 340322001379 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 340322001380 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 340322001381 DNA binding site [nucleotide binding] 340322001382 active site 340322001383 Integrase core domain; Region: rve; cl01316 340322001384 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322001385 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322001386 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 340322001387 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 connected by an extended linker. The...; Region: HAMP; cl01054 340322001388 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 trans-...; Region: HisKA; cd00082 340322001389 dimer interface [polypeptide binding]; other site 340322001390 phosphorylation site [posttranslational modification] 340322001391 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; cl00075 340322001392 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322001393 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 340322001394 active site 340322001395 phosphorylation site [posttranslational modification] 340322001396 intermolecular recognition site; other site 340322001397 dimerization interface [polypeptide binding]; other site 340322001398 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...; Region: trans_reg_C; cd00383 340322001399 DNA binding site [nucleotide binding] 340322001400 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 340322001401 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...; Region: Tryp_SPc; cl00149 340322001402 active site 340322001403 substrate binding sites [chemical binding]; other site 340322001404 Integrase core domain; Region: rve; cl01316 340322001405 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 340322001406 Integrase core domain; Region: rve; cl01316 340322001407 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 340322001408 LGFP repeat; Region: LGFP; pfam08310 340322001409 LGFP repeat; Region: LGFP; pfam08310 340322001410 LGFP repeat; Region: LGFP; pfam08310 340322001411 Integrase core domain; Region: rve; cl01316 340322001412 Integrase core domain; Region: rve; cl01316 340322001413 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 340322001414 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 340322001415 catalytic residues [active] 340322001416 catalytic nucleophile [active] 340322001417 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322001418 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322001419 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322001420 Synaptic Site I dimer interface [polypeptide binding]; other site 340322001421 DNA binding site [nucleotide binding] 340322001422 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 340322001423 DNA-binding interface [nucleotide binding]; DNA binding site 340322001424 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 340322001425 multiple promoter invertase; Provisional; Region: mpi; PRK13413 340322001426 catalytic residues [active] 340322001427 catalytic nucleophile [active] 340322001428 Presynaptic Site I dimer interface [polypeptide binding]; other site 340322001429 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 340322001430 Synaptic Flat tetramer interface [polypeptide binding]; other site 340322001431 Synaptic Site I dimer interface [polypeptide binding]; other site 340322001432 DNA binding site [nucleotide binding] 340322001433 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 340322001434 DNA-binding interface [nucleotide binding]; DNA binding site 340322001435 Integrase core domain; Region: rve; cl01316 340322001436 Integrase core domain; Region: rve; cl01316 340322001437 Predicted membrane protein [Function unknown]; Region: COG4325 340322001438 Integrase core domain; Region: rve; cl01316 340322001439 naphthoate synthase; Validated; Region: PRK08321 340322001440 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 340322001441 substrate binding site [chemical binding]; other site 340322001442 oxyanion hole (OAH) forming residues; other site 340322001443 trimer interface [polypeptide binding]; other site 340322001444 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 340322001445 aromatic arch; other site 340322001446 DCoH dimer interaction site [polypeptide binding]; other site 340322001447 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 340322001448 DCoH tetramer interaction site [polypeptide binding]; other site 340322001449 substrate binding site [chemical binding]; other site 340322001450 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 340322001451 catalytic triad [active] 340322001452 active site nucleophile [active] 340322001453 O-succinylbenzoate synthase; Provisional; Region: PRK02901 340322001454 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 340322001455 active site 340322001456 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 340322001457 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 340322001458 dimer interface [polypeptide binding]; other site 340322001459 tetramer interface [polypeptide binding]; other site 340322001460 PYR/PP interface [polypeptide binding]; other site 340322001461 TPP binding site [chemical binding]; other site 340322001462 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 role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 340322001463 TPP-binding site; other site 340322001464 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322001465 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...; Region: GT1_like_2; cd03814 340322001466 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322001467 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 340322001468 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 340322001469 S-adenosylmethionine binding site [chemical binding]; other site 340322001470 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 340322001471 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340322001472 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340322001473 substrate binding pocket [chemical binding]; other site 340322001474 chain length determination region; other site 340322001475 substrate-Mg2+ binding site; other site 340322001476 catalytic residues [active] 340322001477 aspartate-rich region 1; other site 340322001478 active site lid residues [active] 340322001479 aspartate-rich region 2; other site 340322001480 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 340322001481 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 340322001482 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 340322001483 putative homodimer interface [polypeptide binding]; other site 340322001484 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 340322001485 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 340322001486 23S rRNA interface [nucleotide binding]; other site 340322001487 L7/L12 interface [polypeptide binding]; other site 340322001488 putative thiostrepton binding site; other site 340322001489 L25 interface [polypeptide binding]; other site 340322001490 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...; Region: Ribosomal_L1; cd00403 340322001491 mRNA/rRNA interface [nucleotide binding]; other site 340322001492 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 340322001493 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 340322001494 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 340322001495 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 340322001496 inhibitor-cofactor binding pocket; inhibition site 340322001497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322001498 catalytic residue [active] 340322001499 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322001500 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 340322001501 tetramerization interface [polypeptide binding]; other site 340322001502 NAD(P) binding site [chemical binding]; other site 340322001503 catalytic residues [active] 340322001504 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 340322001505 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322001506 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 340322001507 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322001508 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 340322001509 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322001510 Protein of unknown function (DUF541); Region: SIMPL; cl01077 340322001511 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...; Region: Ribosomal_L10; cd05797 340322001512 23S rRNA interface [nucleotide binding]; other site 340322001513 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 340322001514 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 340322001515 core dimer interface [polypeptide binding]; other site 340322001516 peripheral dimer interface [polypeptide binding]; other site 340322001517 L10 interface [polypeptide binding]; other site 340322001518 L11 interface [polypeptide binding]; other site 340322001519 putative EF-Tu interaction site [polypeptide binding]; other site 340322001520 putative EF-G interaction site [polypeptide binding]; other site 340322001521 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 340322001522 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 340322001523 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; cl04593 340322001524 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 340322001525 RPB1 interaction site [polypeptide binding]; other site 340322001526 RPB10 interaction site [polypeptide binding]; other site 340322001527 RPB11 interaction site [polypeptide binding]; other site 340322001528 RPB3 interaction site [polypeptide binding]; other site 340322001529 RPB12 interaction site [polypeptide binding]; other site 340322001530 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 340322001531 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 340322001532 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 340322001533 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 340322001534 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 340322001535 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 340322001536 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 340322001537 G-loop; other site 340322001538 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 340322001539 DNA binding site [nucleotide binding] 340322001540 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 340322001541 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 340322001542 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322001543 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 340322001544 S17 interaction site [polypeptide binding]; other site 340322001545 S8 interaction site; other site 340322001546 16S rRNA interaction site [nucleotide binding]; other site 340322001547 streptomycin interaction site [chemical binding]; other site 340322001548 23S rRNA interaction site [nucleotide binding]; other site 340322001549 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 340322001550 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 340322001551 elongation factor G; Reviewed; Region: PRK00007 340322001552 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 340322001553 G1 box; other site 340322001554 putative GEF interaction site [polypeptide binding]; other site 340322001555 GTP/Mg2+ binding site [chemical binding]; other site 340322001556 Switch I region; other site 340322001557 G2 box; other site 340322001558 G3 box; other site 340322001559 Switch II region; other site 340322001560 G4 box; other site 340322001561 G5 box; other site 340322001562 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...; Region: EFG_mtEFG_II; cd04088 340322001563 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...; Region: EFG_mtEFG1_IV; cd01434 340322001564 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...; Region: EFG_mtEFG_C; cd03713 340322001565 elongation factor Tu; Reviewed; Region: PRK00049 340322001566 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 340322001567 G1 box; other site 340322001568 GEF interaction site [polypeptide binding]; other site 340322001569 GTP/Mg2+ binding site [chemical binding]; other site 340322001570 Switch I region; other site 340322001571 G2 box; other site 340322001572 G3 box; other site 340322001573 Switch II region; other site 340322001574 G4 box; other site 340322001575 G5 box; other site 340322001576 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 340322001577 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 340322001578 Antibiotic Binding Site [chemical binding]; other site 340322001579 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322001580 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322001581 Walker A/P-loop; other site 340322001582 ATP binding site [chemical binding]; other site 340322001583 Q-loop/lid; other site 340322001584 ABC transporter signature motif; other site 340322001585 Walker B; other site 340322001586 D-loop; other site 340322001587 H-loop/switch region; other site 340322001588 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322001589 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322001590 ABC-ATPase subunit interface; other site 340322001591 dimer interface [polypeptide binding]; other site 340322001592 putative PBP binding regions; other site 340322001593 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...; Region: TM_ABC_iron-siderophores_like; cl00462 340322001594 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322001595 ABC-ATPase subunit interface; other site 340322001596 dimer interface [polypeptide binding]; other site 340322001597 putative PBP binding regions; other site 340322001598 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 340322001599 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 340322001600 conserved cys residue [active] 340322001601 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 340322001602 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 340322001603 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 340322001604 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 340322001605 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 340322001606 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 340322001607 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 340322001608 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 340322001609 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 340322001610 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 340322001611 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 340322001612 putative translocon binding site; other site 340322001613 protein-rRNA interface [nucleotide binding]; other site 340322001614 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 340322001615 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...; Region: 30S_S3_KH; cd02412 340322001616 G-X-X-G motif; other site 340322001617 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 340322001618 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 340322001619 23S rRNA interface [nucleotide binding]; other site 340322001620 5S rRNA interface [nucleotide binding]; other site 340322001621 putative antibiotic binding site [chemical binding]; other site 340322001622 L25 interface [polypeptide binding]; other site 340322001623 L27 interface [polypeptide binding]; other site 340322001624 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...; Region: Ribosomal_L29_HIP; cd00427 340322001625 putative translocon interaction site; other site 340322001626 23S rRNA interface [nucleotide binding]; other site 340322001627 signal recognition particle (SRP54) interaction site; other site 340322001628 L23 interface [polypeptide binding]; other site 340322001629 trigger factor interaction site; other site 340322001630 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 340322001631 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 340322001632 KOW motif; Region: KOW; cl00354 340322001633 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 340322001634 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 340322001635 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 340322001636 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 340322001637 active site 340322001638 catalytic triad [active] 340322001639 oxyanion hole [active] 340322001640 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...; Region: Aldo_ket_red; cd06660 340322001641 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322001642 active site 340322001643 catalytic tetrad [active] 340322001644 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 340322001645 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 340322001646 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 340322001647 putative molybdopterin cofactor binding site [chemical binding]; other site 340322001648 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: MopB_CT_ydeP; cd02787 340322001649 putative molybdopterin cofactor binding site; other site 340322001650 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 340322001651 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 340322001652 Walker A/P-loop; other site 340322001653 ATP binding site [chemical binding]; other site 340322001654 Q-loop/lid; other site 340322001655 ABC transporter signature motif; other site 340322001656 Walker B; other site 340322001657 D-loop; other site 340322001658 H-loop/switch region; other site 340322001659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322001660 Walker A/P-loop; other site 340322001661 ATP binding site [chemical binding]; other site 340322001662 Q-loop/lid; other site 340322001663 ABC transporter signature motif; other site 340322001664 Walker B; other site 340322001665 D-loop; other site 340322001666 H-loop/switch region; other site 340322001667 Cobalt transport protein; Region: CbiQ; cl00463 340322001668 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 340322001669 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322001670 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 340322001671 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 340322001672 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340322001673 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340322001674 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 340322001675 5S rRNA interface [nucleotide binding]; other site 340322001676 L27 interface [polypeptide binding]; other site 340322001677 23S rRNA interface [nucleotide binding]; other site 340322001678 L5 interface [polypeptide binding]; other site 340322001679 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 340322001680 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 340322001681 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 340322001682 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...; Region: Ribosomal_L30; cd01658 340322001683 23S rRNA binding site [nucleotide binding]; other site 340322001684 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 340322001685 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322001686 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322001687 putative substrate translocation pore; other site 340322001688 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322001689 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322001690 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322001691 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 340322001692 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 340322001693 CoenzymeA binding site [chemical binding]; other site 340322001694 subunit interaction site [polypeptide binding]; other site 340322001695 PHB binding site; other site 340322001696 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 340322001697 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 340322001698 Phenylacetic acid degradation B; Region: PaaB; cl01371 340322001699 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 340322001700 Domain of unknown function DUF59; Region: DUF59; cl00941 340322001701 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 340322001702 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 340322001703 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-...; Region: PA_degradation_oxidoreductase_like; cd06214 340322001704 FAD binding pocket [chemical binding]; other site 340322001705 FAD binding motif [chemical binding]; other site 340322001706 phosphate binding motif [ion binding]; other site 340322001707 beta-alpha-beta structure motif; other site 340322001708 NAD(p) ribose binding residues [chemical binding]; other site 340322001709 NAD binding pocket [chemical binding]; other site 340322001710 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 340322001711 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 340322001712 catalytic loop [active] 340322001713 iron binding site [ion binding]; other site 340322001714 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 340322001715 enoyl-CoA hydratase; Provisional; Region: PRK06688 340322001716 substrate binding site [chemical binding]; other site 340322001717 oxyanion hole (OAH) forming residues; other site 340322001718 trimer interface [polypeptide binding]; other site 340322001719 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 340322001720 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 340322001721 dimer interface [polypeptide binding]; other site 340322001722 active site 340322001723 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 340322001724 enoyl-CoA hydratase; Provisional; Region: PRK08138 340322001725 substrate binding site [chemical binding]; other site 340322001726 oxyanion hole (OAH) forming residues; other site 340322001727 trimer interface [polypeptide binding]; other site 340322001728 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 340322001729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001730 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 340322001731 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 340322001732 CoenzymeA binding site [chemical binding]; other site 340322001733 subunit interaction site [polypeptide binding]; other site 340322001734 PHB binding site; other site 340322001735 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 340322001736 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 340322001737 substrate binding site [chemical binding]; other site 340322001738 dimer interface [polypeptide binding]; other site 340322001739 NADP binding site [chemical binding]; other site 340322001740 catalytic residues [active] 340322001741 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 340322001742 active site 2 [active] 340322001743 active site 1 [active] 340322001744 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322001745 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 340322001746 NAD binding site [chemical binding]; other site 340322001747 catalytic residues [active] 340322001748 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340322001749 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 340322001750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322001751 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 340322001752 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322001753 classical (c) SDRs; Region: SDR_c; cd05233 340322001754 NAD(P) binding site [chemical binding]; other site 340322001755 active site 340322001756 hypothetical protein; Provisional; Region: PRK08296 340322001757 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 340322001758 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 340322001759 Cytochrome P450; Region: p450; cl12078 340322001760 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322001761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322001762 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322001763 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 340322001764 SecY translocase; Region: SecY; pfam00344 340322001765 adenylate kinase; Reviewed; Region: adk; PRK00279 340322001766 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 340322001767 AMP-binding site [chemical binding]; other site 340322001768 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 340322001769 methionine aminopeptidase; Reviewed; Region: PRK07281 340322001770 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 340322001771 active site 340322001772 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 340322001773 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 340322001774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001775 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 340322001776 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 340322001777 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 340322001778 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 340322001779 NAD binding site [chemical binding]; other site 340322001780 homodimer interface [polypeptide binding]; other site 340322001781 active site 340322001782 substrate binding site [chemical binding]; other site 340322001783 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 340322001784 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 340322001785 DXD motif; other site 340322001786 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 340322001787 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340322001788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001789 NAD(P) binding site [chemical binding]; other site 340322001790 active site 340322001791 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 340322001792 rRNA binding site [nucleotide binding]; other site 340322001793 predicted 30S ribosome binding site; other site 340322001794 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 340322001795 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 340322001796 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 340322001797 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 340322001798 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 340322001799 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 340322001800 RNA binding surface [nucleotide binding]; other site 340322001801 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 340322001802 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 340322001803 alphaNTD - beta interaction site [polypeptide binding]; other site 340322001804 alphaNTD homodimer interface [polypeptide binding]; other site 340322001805 alphaNTD - beta' interaction site [polypeptide binding]; other site 340322001806 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 340322001807 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 340322001808 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 340322001809 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 340322001810 dimerization interface 3.5A [polypeptide binding]; other site 340322001811 active site 340322001812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322001813 Protein of unknown function (DUF690); Region: DUF690; cl04939 340322001814 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340322001815 FAD binding domain; Region: FAD_binding_4; pfam01565 340322001816 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 340322001817 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; cl12011 340322001818 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 340322001819 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 340322001820 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 340322001821 active site 340322001822 catalytic residues [active] 340322001823 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 340322001824 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 340322001825 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322001826 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 340322001827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322001828 C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 340322001829 Proteins of 100 residues with WXG; Region: WXG100; cl02005 340322001830 Proteins of 100 residues with WXG; Region: WXG100; cl02005 340322001831 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 340322001832 23S rRNA interface [nucleotide binding]; other site 340322001833 L3 interface [polypeptide binding]; other site 340322001834 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 340322001835 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 340322001836 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 UDP-N-...; Region: GlmM; cd05802 340322001837 active site 340322001838 substrate binding site [chemical binding]; other site 340322001839 metal binding site [ion binding]; metal-binding site 340322001840 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 340322001841 alanine racemase; Reviewed; Region: alr; PRK00053 340322001842 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 340322001843 active site 340322001844 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322001845 dimer interface [polypeptide binding]; other site 340322001846 substrate binding site [chemical binding]; other site 340322001847 catalytic residues [active] 340322001848 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 340322001849 Predicted permease [General function prediction only]; Region: COG2985 340322001850 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 340322001851 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; cl09110 340322001852 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 340322001853 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 340322001854 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 340322001855 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 340322001856 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322001857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322001858 Coenzyme A binding pocket [chemical binding]; other site 340322001859 UGMP family protein; Validated; Region: PRK09604 340322001860 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 340322001861 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 340322001862 putative substrate binding site [chemical binding]; other site 340322001863 putative ATP binding site [chemical binding]; other site 340322001864 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...; Region: cpn10; cd00320 340322001865 oligomerisation interface [polypeptide binding]; other site 340322001866 mobile loop; other site 340322001867 roof hairpin; other site 340322001868 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 340322001869 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 340322001870 ring oligomerisation interface [polypeptide binding]; other site 340322001871 ATP/Mg binding site [chemical binding]; other site 340322001872 stacking interactions; other site 340322001873 hinge regions; other site 340322001874 Transcription factor WhiB; Region: Whib; pfam02467 340322001875 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 340322001876 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 340322001877 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...; Region: Sigma70_r4; cd06171 340322001878 DNA binding residues [nucleotide binding] 340322001879 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 340322001880 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; cl09108 340322001881 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 key...; Region: CBS_pair_IMPDH; cd04601 340322001882 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 the...; Region: IMPDH; cd00381 340322001883 active site 340322001884 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 340322001885 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; cl09108 340322001886 phosphate binding site [ion binding]; other site 340322001887 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 340322001888 EamA-like transporter family; Region: EamA; cl01037 340322001889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322001890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322001891 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 340322001892 putative dimerization interface [polypeptide binding]; other site 340322001893 GMP synthase; Reviewed; Region: guaA; PRK00074 340322001894 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 340322001895 AMP/PPi binding site [chemical binding]; other site 340322001896 candidate oxyanion hole; other site 340322001897 catalytic triad [active] 340322001898 potential glutamine specificity residues [chemical binding]; other site 340322001899 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 340322001900 ATP Binding subdomain [chemical binding]; other site 340322001901 Ligand Binding sites [chemical binding]; other site 340322001902 Dimerization subdomain; other site 340322001903 PspC domain; Region: PspC; cl00864 340322001904 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 340322001905 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322001906 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 340322001907 active site 340322001908 phosphorylation site [posttranslational modification] 340322001909 intermolecular recognition site; other site 340322001910 dimerization interface [polypeptide binding]; other site 340322001911 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...; Region: LuxR_C_like; cd06170 340322001912 dimerization interface [polypeptide binding]; other site 340322001913 DNA binding residues [nucleotide binding] 340322001914 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 340322001915 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 340322001916 DNA Polymerase Y-family; Region: PolY_like; cd03468 340322001917 active site 340322001918 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 340322001919 DNA binding site [nucleotide binding] 340322001920 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 340322001921 putative dimer interface [polypeptide binding]; other site 340322001922 putative [2Fe-2S] cluster binding site [ion binding]; other site 340322001923 UbiA prenyltransferase family; Region: UbiA; cl00337 340322001924 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 340322001925 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322001926 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 340322001927 active site lid residues [active] 340322001928 substrate binding pocket [chemical binding]; other site 340322001929 catalytic residues [active] 340322001930 substrate-Mg2+ binding site; other site 340322001931 aspartate-rich region 1; other site 340322001932 aspartate-rich region 2; other site 340322001933 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 340322001934 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340322001935 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340322001936 substrate binding pocket [chemical binding]; other site 340322001937 chain length determination region; other site 340322001938 substrate-Mg2+ binding site; other site 340322001939 catalytic residues [active] 340322001940 aspartate-rich region 1; other site 340322001941 active site lid residues [active] 340322001942 aspartate-rich region 2; other site 340322001943 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322001944 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322001945 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 340322001946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322001947 NAD(P) binding site [chemical binding]; other site 340322001948 active site 340322001949 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 340322001950 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 340322001951 DNA photolyase; Region: DNA_photolyase; pfam00875 340322001952 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 340322001953 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 340322001954 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322001955 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 340322001956 Walker A/P-loop; other site 340322001957 ATP binding site [chemical binding]; other site 340322001958 Q-loop/lid; other site 340322001959 ABC transporter signature motif; other site 340322001960 Walker B; other site 340322001961 D-loop; other site 340322001962 H-loop/switch region; other site 340322001963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322001964 dimer interface [polypeptide binding]; other site 340322001965 conserved gate region; other site 340322001966 putative PBP binding loops; other site 340322001967 ABC-ATPase subunit interface; other site 340322001968 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 340322001969 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 340322001970 Walker A/P-loop; other site 340322001971 ATP binding site [chemical binding]; other site 340322001972 Q-loop/lid; other site 340322001973 ABC transporter signature motif; other site 340322001974 Walker B; other site 340322001975 D-loop; other site 340322001976 H-loop/switch region; other site 340322001977 NIL domain; Region: NIL; pfam09383 340322001978 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 340322001979 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 340322001980 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 340322001981 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 340322001982 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...; Region: DnaE_OBF; cd04485 340322001983 generic binding surface II; other site 340322001984 generic binding surface I; other site 340322001985 Bacterial membrane flanked domain; Region: DUF304; cl01348 340322001986 Predicted membrane protein [Function unknown]; Region: COG3428 340322001987 Bacterial membrane flanked domain; Region: DUF304; cl01348 340322001988 Bacterial membrane flanked domain; Region: DUF304; cl01348 340322001989 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 340322001990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322001991 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322001992 FeoA domain; Region: FeoA; cl00838 340322001993 NAD-dependent deacetylase; Provisional; Region: PRK14138 340322001994 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...; Region: SIRT5_Af1_CobB; cd01412 340322001995 NAD+ binding site [chemical binding]; other site 340322001996 substrate binding site [chemical binding]; other site 340322001997 Zn binding site [ion binding]; other site 340322001998 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 340322001999 nucleoside/Zn binding site; other site 340322002000 dimer interface [polypeptide binding]; other site 340322002001 catalytic motif [active] 340322002002 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...; Region: FhuD; cd01146 340322002003 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002004 siderophore binding site; other site 340322002005 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340322002006 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 340322002007 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 340322002008 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 340322002009 homodimer interface [polypeptide binding]; other site 340322002010 NADP binding site [chemical binding]; other site 340322002011 substrate binding site [chemical binding]; other site 340322002012 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 340322002013 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...; Region: Band_7_flotillin; cd03399 340322002014 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 340322002015 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 340322002016 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 340322002017 proline/glycine betaine transporter; Provisional; Region: PRK10642 340322002018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002019 putative substrate translocation pore; other site 340322002020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322002021 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322002022 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 340322002023 putative substrate binding pocket [chemical binding]; other site 340322002024 dimerization interface [polypeptide binding]; other site 340322002025 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 340322002026 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 340322002027 homotrimer interaction site [polypeptide binding]; other site 340322002028 putative active site [active] 340322002029 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 340322002030 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 340322002031 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322002032 metal binding site [ion binding]; metal-binding site 340322002033 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; cl12031 340322002034 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 340322002035 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05613 340322002036 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 340322002037 homodimer interface [polypeptide binding]; other site 340322002038 substrate-cofactor binding pocket; other site 340322002039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002040 catalytic residue [active] 340322002041 Carbon starvation protein CstA; Region: CstA; cl00856 340322002042 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 340322002043 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 340322002044 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 340322002045 tetramer interface [polypeptide binding]; other site 340322002046 active site 340322002047 Mg2+/Mn2+ binding site [ion binding]; other site 340322002048 citrate synthase; Provisional; Region: PRK14033 340322002049 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...; Region: DsCS_like; cd06111 340322002050 dimer interface [polypeptide binding]; other site 340322002051 active site 340322002052 citrylCoA binding site [chemical binding]; other site 340322002053 oxalacetate/citrate binding site [chemical binding]; other site 340322002054 coenzyme A binding site [chemical binding]; other site 340322002055 catalytic triad [active] 340322002056 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 340322002057 Transcriptional regulators [Transcription]; Region: GntR; COG1802 340322002058 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322002059 DNA-binding site [nucleotide binding]; DNA binding site 340322002060 FCD domain; Region: FCD; cl11656 340322002061 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 340322002062 isocitrate dehydrogenase, NADP-dependent, monomeric type; Region: monomer_idh; TIGR00178 340322002063 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 340322002064 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 340322002065 FAD binding pocket [chemical binding]; other site 340322002066 FAD binding motif [chemical binding]; other site 340322002067 phosphate binding motif [ion binding]; other site 340322002068 NAD binding pocket [chemical binding]; other site 340322002069 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322002070 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322002071 Walker A/P-loop; other site 340322002072 ATP binding site [chemical binding]; other site 340322002073 Q-loop/lid; other site 340322002074 ABC transporter signature motif; other site 340322002075 Walker B; other site 340322002076 D-loop; other site 340322002077 H-loop/switch region; other site 340322002078 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322002079 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322002080 ABC-ATPase subunit interface; other site 340322002081 dimer interface [polypeptide binding]; other site 340322002082 putative PBP binding regions; other site 340322002083 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322002084 ABC-ATPase subunit interface; other site 340322002085 dimer interface [polypeptide binding]; other site 340322002086 putative PBP binding regions; other site 340322002087 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...; Region: FhuD; cd01146 340322002088 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002089 siderophore binding site; other site 340322002090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002091 putative substrate translocation pore; other site 340322002092 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 340322002093 putative catalytic site [active] 340322002094 putative metal binding site [ion binding]; other site 340322002095 putative phosphate binding site [ion binding]; other site 340322002096 Predicted membrane protein [Function unknown]; Region: COG2860 340322002097 UPF0126 domain; Region: UPF0126; pfam03458 340322002098 UPF0126 domain; Region: UPF0126; pfam03458 340322002099 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...; Region: TroA-like; cl00262 340322002100 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002101 intersubunit interface [polypeptide binding]; other site 340322002102 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322002103 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322002104 Walker A/P-loop; other site 340322002105 ATP binding site [chemical binding]; other site 340322002106 Q-loop/lid; other site 340322002107 ABC transporter signature motif; other site 340322002108 Walker B; other site 340322002109 D-loop; other site 340322002110 H-loop/switch region; other site 340322002111 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322002112 ABC-ATPase subunit interface; other site 340322002113 dimer interface [polypeptide binding]; other site 340322002114 putative PBP binding regions; other site 340322002115 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 340322002116 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 340322002117 active site 340322002118 HIGH motif; other site 340322002119 dimer interface [polypeptide binding]; other site 340322002120 KMSKS motif; other site 340322002121 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 340322002122 RDD family; Region: RDD; cl00746 340322002123 Beta-lactamase; Region: Beta-lactamase; cl01009 340322002124 NlpC/P60 family; Region: NLPC_P60; cl11438 340322002125 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322002126 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 340322002127 non-specific DNA binding site [nucleotide binding]; other site 340322002128 salt bridge; other site 340322002129 sequence-specific DNA binding site [nucleotide binding]; other site 340322002130 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 340322002131 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 deoxyribose-1-...; Region: PGM2; cd05799 340322002132 active site 340322002133 substrate binding site [chemical binding]; other site 340322002134 metal binding site [ion binding]; metal-binding site 340322002135 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322002136 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 340322002137 metal binding site [ion binding]; metal-binding site 340322002138 putative dimer interface [polypeptide binding]; other site 340322002139 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 340322002140 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 340322002141 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322002142 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322002143 pyruvate carboxylase; Reviewed; Region: PRK12999 340322002144 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322002145 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322002146 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 340322002147 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 340322002148 active site 340322002149 catalytic residues [active] 340322002150 metal binding site [ion binding]; metal-binding site 340322002151 homodimer binding site [polypeptide binding]; other site 340322002152 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 340322002153 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 340322002154 carboxyltransferase (CT) interaction site; other site 340322002155 biotinylation site [posttranslational modification]; other site 340322002156 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 340322002157 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322002158 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 340322002159 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 340322002160 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 340322002161 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 340322002162 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 340322002163 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 340322002164 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 340322002165 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 340322002166 tetramer interface [polypeptide binding]; other site 340322002167 active site 340322002168 Mg2+/Mn2+ binding site [ion binding]; other site 340322002169 citrate synthase; Provisional; Region: PRK14033 340322002170 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...; Region: DsCS_like; cd06111 340322002171 dimer interface [polypeptide binding]; other site 340322002172 active site 340322002173 citrylCoA binding site [chemical binding]; other site 340322002174 oxalacetate/citrate binding site [chemical binding]; other site 340322002175 coenzyme A binding site [chemical binding]; other site 340322002176 catalytic triad [active] 340322002177 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 340322002178 non-specific DNA binding site [nucleotide binding]; other site 340322002179 salt bridge; other site 340322002180 sequence-specific DNA binding site [nucleotide binding]; other site 340322002181 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 340322002182 Domain of unknown function (DUF955); Region: DUF955; cl01076 340322002183 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 340322002184 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 340322002185 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322002186 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322002187 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 340322002188 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 340322002189 carboxyltransferase (CT) interaction site; other site 340322002190 biotinylation site [posttranslational modification]; other site 340322002191 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 340322002192 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...; Region: TST_Repeat_1; cd01448 340322002193 active site residue [active] 340322002194 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 340322002195 active site residue [active] 340322002196 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 340322002197 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 340322002198 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 340322002199 active site 340322002200 dimer interface [polypeptide binding]; other site 340322002201 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 340322002202 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322002203 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322002204 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 340322002205 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322002206 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322002207 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340322002208 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 340322002209 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 340322002210 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322002211 K+ potassium transporter; Region: K_trans; cl01227 340322002212 AIR carboxylase; Region: AIRC; cl00310 340322002213 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 340322002214 putative active site [active] 340322002215 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 340322002216 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 340322002217 active site 340322002218 non-prolyl cis peptide bond; other site 340322002219 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322002220 putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR; Region: BKR_2_SDR_c; cd05349 340322002221 putative NAD(P) binding site [chemical binding]; other site 340322002222 active site 340322002223 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 5,10-...; Region: DHFR; cl00161 340322002224 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 340322002225 putative dimer interface [polypeptide binding]; other site 340322002226 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322002227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322002228 dimer interface [polypeptide binding]; other site 340322002229 conserved gate region; other site 340322002230 putative PBP binding loops; other site 340322002231 ABC-ATPase subunit interface; other site 340322002232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322002233 dimer interface [polypeptide binding]; other site 340322002234 conserved gate region; other site 340322002235 putative PBP binding loops; other site 340322002236 ABC-ATPase subunit interface; other site 340322002237 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 340322002238 putative hydrophobic ligand binding site [chemical binding]; other site 340322002239 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 340322002240 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322002241 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 340322002242 Walker A/P-loop; other site 340322002243 ATP binding site [chemical binding]; other site 340322002244 Q-loop/lid; other site 340322002245 ABC transporter signature motif; other site 340322002246 Walker B; other site 340322002247 D-loop; other site 340322002248 H-loop/switch region; other site 340322002249 TOBE domain; Region: TOBE_2; cl01440 340322002250 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322002251 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 340322002252 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322002253 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 340322002254 Probable Catalytic site [active] 340322002255 metal binding site [ion binding]; metal-binding site 340322002256 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 340322002257 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 340322002258 active site 340322002259 Substrate binding site [chemical binding]; other site 340322002260 Mg++ binding site [ion binding]; other site 340322002261 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 340322002262 putative trimer interface [polypeptide binding]; other site 340322002263 putative CoA binding site [chemical binding]; other site 340322002264 Transcription factor WhiB; Region: Whib; pfam02467 340322002265 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 340322002266 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 340322002267 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 340322002268 active site 340322002269 substrate binding site [chemical binding]; other site 340322002270 metal binding site [ion binding]; metal-binding site 340322002271 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 340322002272 Phosphomannose isomerase type I; Region: PMI_typeI; pfam01238 340322002273 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 340322002274 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 340322002275 oligomerization interface [polypeptide binding]; other site 340322002276 active site 340322002277 NAD+ binding site [chemical binding]; other site 340322002278 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 340322002279 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...; Region: TMPK; cd01672 340322002280 TMP-binding site; other site 340322002281 ATP-binding site [chemical binding]; other site 340322002282 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322002283 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 340322002284 active site 340322002285 phosphorylation site [posttranslational modification] 340322002286 intermolecular recognition site; other site 340322002287 dimerization interface [polypeptide binding]; other site 340322002288 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...; Region: trans_reg_C; cd00383 340322002289 DNA binding site [nucleotide binding] 340322002290 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 connected by an extended linker. The...; Region: HAMP; cd06225 340322002291 dimerization interface [polypeptide binding]; other site 340322002292 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 trans-...; Region: HisKA; cd00082 340322002293 dimer interface [polypeptide binding]; other site 340322002294 phosphorylation site [posttranslational modification] 340322002295 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 340322002296 ATP binding site [chemical binding]; other site 340322002297 Mg2+ binding site [ion binding]; other site 340322002298 G-X-G motif; other site 340322002299 lipoprotein LpqB; Provisional; Region: PRK13616 340322002300 Sporulation and spore germination; Region: Germane; pfam10646 340322002301 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 340322002302 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322002303 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 A site...; Region: RaiA; cd00552 340322002304 30S subunit binding site; other site 340322002305 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 340322002306 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; cl14882 340322002307 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 340322002308 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 340322002309 nucleotide binding region [chemical binding]; other site 340322002310 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; cl11391 340322002311 Predicted GTPases [General function prediction only]; Region: COG1162 340322002312 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 340322002313 GTPase/OB domain interface [polypeptide binding]; other site 340322002314 GTPase/Zn-binding domain interface [polypeptide binding]; other site 340322002315 GTP/Mg2+ binding site [chemical binding]; other site 340322002316 G4 box; other site 340322002317 G1 box; other site 340322002318 Switch I region; other site 340322002319 G2 box; other site 340322002320 G3 box; other site 340322002321 Switch II region; other site 340322002322 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 340322002323 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 340322002324 hinge; other site 340322002325 active site 340322002326 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 340322002327 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...; Region: HNHc; cd00085 340322002328 active site 340322002329 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 340322002330 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322002331 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...; Region: Sigma70_r4; cd06171 340322002332 DNA binding residues [nucleotide binding] 340322002333 Transcription factor WhiB; Region: Whib; pfam02467 340322002334 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 340322002335 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340322002336 ATP binding site [chemical binding]; other site 340322002337 Mg++ binding site [ion binding]; other site 340322002338 motif III; other site 340322002339 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 340322002340 nucleotide binding region [chemical binding]; other site 340322002341 ATP-binding site [chemical binding]; other site 340322002342 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 340322002343 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 340322002344 TIGR02569 family protein; Region: TIGR02569_actnb 340322002345 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 340322002346 UvrD/REP helicase; Region: UvrD-helicase; cl14126 340322002347 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 340322002348 UvrD/REP helicase; Region: UvrD-helicase; cl14126 340322002349 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 340322002350 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 340322002351 Ion channel; Region: Ion_trans_2; cl11596 340322002352 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 340322002353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322002354 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 340322002355 putative NADH binding site [chemical binding]; other site 340322002356 putative active site [active] 340322002357 nudix motif; other site 340322002358 putative metal binding site [ion binding]; other site 340322002359 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 340322002360 UvrD/REP helicase; Region: UvrD-helicase; cl14126 340322002361 HRDC domain; Region: HRDC; cl02578 340322002362 Protein of unknown function DUF45; Region: DUF45; cl00636 340322002363 Uncharacterised conserved protein (DUF2342); Region: DUF2342; cl02183 340322002364 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 340322002365 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...; Region: PDZ_metalloprotease; cd00989 340322002366 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 340322002367 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 340322002368 Uncharacterised protein family (UPF0182); Region: UPF0182; pfam03699 340322002369 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 340322002370 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322002371 DNA-binding site [nucleotide binding]; DNA binding site 340322002372 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 340322002373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002374 homodimer interface [polypeptide binding]; other site 340322002375 pyridoxal biosynthesis lyase PdxS; Provisional; Region: PRK04180 340322002376 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 340322002377 active site 340322002378 multimer interface [polypeptide binding]; other site 340322002379 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 340322002380 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 340322002381 predicted active site [active] 340322002382 catalytic triad [active] 340322002383 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...; Region: Tryp_SPc; cl00149 340322002384 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 340322002385 active site 340322002386 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-1,6-; Region: IMPase_like; cd01637 340322002387 active site 340322002388 peptide chain release factor 2; Validated; Region: prfB; PRK00578 340322002389 RF-1 domain; Region: RF-1; cl02875 340322002390 RF-1 domain; Region: RF-1; cl02875 340322002391 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 340322002392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322002393 Walker A/P-loop; other site 340322002394 ATP binding site [chemical binding]; other site 340322002395 Q-loop/lid; other site 340322002396 ABC transporter signature motif; other site 340322002397 Walker B; other site 340322002398 D-loop; other site 340322002399 H-loop/switch region; other site 340322002400 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 340322002401 FtsX-like permease family; Region: FtsX; pfam02687 340322002402 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 340322002403 SmpB-tmRNA interface; other site 340322002404 Protein of unknown function, DUF488; Region: DUF488; cl01246 340322002405 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 340322002406 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322002407 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322002408 dimer interface [polypeptide binding]; other site 340322002409 conserved gate region; other site 340322002410 putative PBP binding loops; other site 340322002411 ABC-ATPase subunit interface; other site 340322002412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322002413 dimer interface [polypeptide binding]; other site 340322002414 conserved gate region; other site 340322002415 putative PBP binding loops; other site 340322002416 ABC-ATPase subunit interface; other site 340322002417 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 340322002418 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 340322002419 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322002420 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 340322002421 Walker A/P-loop; other site 340322002422 ATP binding site [chemical binding]; other site 340322002423 Q-loop/lid; other site 340322002424 ABC transporter signature motif; other site 340322002425 Walker B; other site 340322002426 D-loop; other site 340322002427 H-loop/switch region; other site 340322002428 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...; Region: TM_ABC_iron-siderophores_like; cl00462 340322002429 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; cl12011 340322002430 cofactor binding site; other site 340322002431 DNA binding site [nucleotide binding] 340322002432 substrate interaction site [chemical binding]; other site 340322002433 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 340322002434 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 340322002435 FAD binding pocket [chemical binding]; other site 340322002436 FAD binding motif [chemical binding]; other site 340322002437 phosphate binding motif [ion binding]; other site 340322002438 NAD binding pocket [chemical binding]; other site 340322002439 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...; Region: FhuD; cd01146 340322002440 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 340322002441 siderophore binding site; other site 340322002442 Vitamin K epoxide reductase family; Region: VKOR; cl01729 340322002443 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 340322002444 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...; Region: TroA-like; cl00262 340322002445 intersubunit interface [polypeptide binding]; other site 340322002446 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 340322002447 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322002448 ABC-ATPase subunit interface; other site 340322002449 dimer interface [polypeptide binding]; other site 340322002450 putative PBP binding regions; other site 340322002451 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 340322002452 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322002453 ABC-ATPase subunit interface; other site 340322002454 dimer interface [polypeptide binding]; other site 340322002455 putative PBP binding regions; other site 340322002456 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 340322002457 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322002458 Walker A/P-loop; other site 340322002459 ATP binding site [chemical binding]; other site 340322002460 Q-loop/lid; other site 340322002461 ABC transporter signature motif; other site 340322002462 Walker B; other site 340322002463 D-loop; other site 340322002464 H-loop/switch region; other site 340322002465 methionine aminotransferase; Validated; Region: PRK09082 340322002466 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 340322002467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002468 homodimer interface [polypeptide binding]; other site 340322002469 catalytic residue [active] 340322002470 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 340322002471 DNA repair helicase rad25; Region: rad25; TIGR00603 340322002472 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322002473 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 340322002474 ATP binding site [chemical binding]; other site 340322002475 putative Mg++ binding site [ion binding]; other site 340322002476 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; cl14882 340322002477 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 protein...; Region: CSP_CDS; cd04458 340322002478 DNA-binding site [nucleotide binding]; DNA binding site 340322002479 RNA-binding motif; other site 340322002480 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 340322002481 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 340322002482 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 340322002483 substrate-cofactor binding pocket; other site 340322002484 homodimer interface [polypeptide binding]; other site 340322002485 Aminotransferase class IV; Region: Aminotran_4; pfam01063 340322002486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002487 catalytic residue [active] 340322002488 Sulfate transporter family; Region: Sulfate_transp; cl00967 340322002489 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340322002490 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340322002491 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 340322002492 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 340322002493 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 340322002494 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322002495 catalytic residue [active] 340322002496 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 340322002497 dimer interface [polypeptide binding]; other site 340322002498 Citrate synthase; Region: Citrate_synt; pfam00285 340322002499 active site 340322002500 citrylCoA binding site [chemical binding]; other site 340322002501 NADH binding [chemical binding]; other site 340322002502 cationic pore residues; other site 340322002503 oxalacetate/citrate binding site [chemical binding]; other site 340322002504 coenzyme A binding site [chemical binding]; other site 340322002505 catalytic triad [active] 340322002506 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 340322002507 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 340322002508 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322002509 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322002510 Protein of unknown function, DUF485; Region: DUF485; cl01231 340322002511 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 340322002512 Sodium:solute symporter family; Region: SSF; cl00456 340322002513 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 340322002514 active site 340322002515 Acyl transferase domain; Region: Acyl_transf_1; cl08282 340322002516 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 340322002517 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...; Region: NPD_like; cd04730 340322002518 FMN binding site [chemical binding]; other site 340322002519 substrate binding site [chemical binding]; other site 340322002520 putative catalytic residue [active] 340322002521 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 340322002522 FAS_MaoC, the MaoC-like hot dog fold of the fatty acid synthase, beta subunit. Other enzymes with this fold include MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and 17-beta-hydroxysteriod dehydrogenase (HSD); Region: FAS_MaoC; cd03447 340322002523 putative active site [active] 340322002524 putative catalytic site [active] 340322002525 Acyl transferase domain; Region: Acyl_transf_1; cl08282 340322002526 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 340322002527 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 340322002528 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 340322002529 putative NAD(P) binding site [chemical binding]; other site 340322002530 active site 340322002531 '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) thioesters as...; Region: elong_cond_enzymes; cd00828 340322002532 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 340322002533 active site 340322002534 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 340322002535 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; cl12031 340322002536 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...; Region: NrdH; cd02976 340322002537 catalytic residues [active] 340322002538 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 5,10-...; Region: DHFR; cd00209 340322002539 folate binding site [chemical binding]; other site 340322002540 NADP+ binding site [chemical binding]; other site 340322002541 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 340322002542 dimerization interface [polypeptide binding]; other site 340322002543 active site 340322002544 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 cysteine...; Region: CysQ; cd01638 340322002545 active site 340322002546 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 340322002547 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 340322002548 ATP binding site [chemical binding]; other site 340322002549 putative Mg++ binding site [ion binding]; other site 340322002550 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 340322002551 nucleotide binding region [chemical binding]; other site 340322002552 ATP-binding site [chemical binding]; other site 340322002553 DEAD/H associated; Region: DEAD_assoc; pfam08494 340322002554 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 340322002555 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 340322002556 putative DNA binding site [nucleotide binding]; other site 340322002557 catalytic residue [active] 340322002558 putative H2TH interface [polypeptide binding]; other site 340322002559 putative catalytic residues [active] 340322002560 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 340322002561 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 340322002562 Predicted membrane protein [Function unknown]; Region: COG3304 340322002563 Domain of unknown function (DUF307); Region: DUF307; pfam03733 340322002564 Domain of unknown function (DUF307); Region: DUF307; pfam03733 340322002565 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 340322002566 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 340322002567 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002568 putative substrate translocation pore; other site 340322002569 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 340322002570 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 340322002571 active site 340322002572 dimer interface [polypeptide binding]; other site 340322002573 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 340322002574 dimer interface [polypeptide binding]; other site 340322002575 active site 340322002576 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...; Region: HNHc; cd00085 340322002577 active site 340322002578 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 340322002579 UvrD/REP helicase; Region: UvrD-helicase; cl14126 340322002580 FtsX-like permease family; Region: FtsX; pfam02687 340322002581 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322002582 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 340322002583 Walker A/P-loop; other site 340322002584 ATP binding site [chemical binding]; other site 340322002585 Q-loop/lid; other site 340322002586 ABC transporter signature motif; other site 340322002587 Walker B; other site 340322002588 D-loop; other site 340322002589 H-loop/switch region; other site 340322002590 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322002591 Peptidase family M23; Region: Peptidase_M23; pfam01551 340322002592 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 340322002593 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 340322002594 active site 340322002595 substrate binding site [chemical binding]; other site 340322002596 cosubstrate binding site; other site 340322002597 catalytic site [active] 340322002598 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 340322002599 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 340322002600 purine monophosphate binding site [chemical binding]; other site 340322002601 dimer interface [polypeptide binding]; other site 340322002602 putative catalytic residues [active] 340322002603 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 340322002604 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 340322002605 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; cl09155 340322002606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322002607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322002608 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 340322002609 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 340322002610 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 340322002611 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 340322002612 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 340322002613 Sulfate transporter family; Region: Sulfate_transp; cl00967 340322002614 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 340322002615 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 340322002616 dimerization interface [polypeptide binding]; other site 340322002617 putative DNA binding site [nucleotide binding]; other site 340322002618 putative Zn2+ binding site [ion binding]; other site 340322002619 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 340322002620 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322002621 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 340322002622 active site 340322002623 phosphorylation site [posttranslational modification] 340322002624 intermolecular recognition site; other site 340322002625 dimerization interface [polypeptide binding]; other site 340322002626 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...; Region: trans_reg_C; cd00383 340322002627 DNA binding site [nucleotide binding] 340322002628 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 340322002629 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 connected by an extended linker. The...; Region: HAMP; cd06225 340322002630 dimerization interface [polypeptide binding]; other site 340322002631 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 trans-...; Region: HisKA; cd00082 340322002632 dimer interface [polypeptide binding]; other site 340322002633 phosphorylation site [posttranslational modification] 340322002634 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 340322002635 ATP binding site [chemical binding]; other site 340322002636 Mg2+ binding site [ion binding]; other site 340322002637 G-X-G motif; other site 340322002638 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...; Region: Tryp_SPc; cl00149 340322002639 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 C-...; Region: PDZ_serine_protease; cd00987 340322002640 protein binding site [polypeptide binding]; other site 340322002641 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 340322002642 MPT binding site; other site 340322002643 trimer interface [polypeptide binding]; other site 340322002644 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 340322002645 SAF domain; Region: SAF; cl00555 340322002646 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 340322002647 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 340322002648 active site 340322002649 tetramer interface [polypeptide binding]; other site 340322002650 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 340322002651 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 340322002652 dimer interface [polypeptide binding]; other site 340322002653 putative functional site; other site 340322002654 putative MPT binding site; other site 340322002655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322002656 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 340322002657 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002658 putative substrate translocation pore; other site 340322002659 DoxX; Region: DoxX; cl00976 340322002660 Predicted integral membrane protein [Function unknown]; Region: COG5660 340322002661 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 340322002662 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 340322002663 Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]; Region: PMT1; COG1928 340322002664 Predicted methyltransferases [General function prediction only]; Region: COG0313 340322002665 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 340322002666 BCCT family transporter; Region: BCCT; cl00569 340322002667 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 340322002668 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 340322002669 active site 340322002670 HIGH motif; other site 340322002671 KMSKS motif; other site 340322002672 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 340322002673 tRNA binding surface [nucleotide binding]; other site 340322002674 anticodon binding site; other site 340322002675 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 340322002676 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 340322002677 ATP binding site [chemical binding]; other site 340322002678 putative Mg++ binding site [ion binding]; other site 340322002679 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 340322002680 nucleotide binding region [chemical binding]; other site 340322002681 ATP-binding site [chemical binding]; other site 340322002682 Putative cyclase; Region: Cyclase; cl00814 340322002683 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 340322002684 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 340322002685 active site 340322002686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 340322002687 Domain of unknown function (DUF348); Region: DUF348; pfam03990 340322002688 Domain of unknown function (DUF348); Region: DUF348; pfam03990 340322002689 G5 domain; Region: G5; pfam07501 340322002690 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 340322002691 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; cl12011 340322002692 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 340322002693 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 340322002694 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322002695 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 340322002696 ABC transporter; Region: ABC_tran_2; pfam12848 340322002697 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 340322002698 Mnd1 family; Region: Mnd1; pfam03962 340322002699 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 340322002700 dimer interface [polypeptide binding]; other site 340322002701 pyridoxal binding site [chemical binding]; other site 340322002702 ATP binding site [chemical binding]; other site 340322002703 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...; Region: TlpA_like_family; cd02966 340322002704 catalytic residues [active] 340322002705 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 340322002706 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 340322002707 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 340322002708 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 340322002709 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 340322002710 active site 340322002711 motif I; other site 340322002712 motif II; other site 340322002713 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; cl11391 340322002714 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 340322002715 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 340322002716 substrate binding site [chemical binding]; other site 340322002717 oxyanion hole (OAH) forming residues; other site 340322002718 trimer interface [polypeptide binding]; other site 340322002719 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 340322002720 Predicted esterase [General function prediction only]; Region: COG0627 340322002721 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 340322002722 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 340322002723 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 340322002724 Domain of unknown function DUF222; Region: DUF222; pfam02720 340322002725 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...; Region: HNHc; cd00085 340322002726 active site 340322002727 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 340322002728 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 340322002729 G1 box; other site 340322002730 putative GEF interaction site [polypeptide binding]; other site 340322002731 GTP/Mg2+ binding site [chemical binding]; other site 340322002732 Switch I region; other site 340322002733 G2 box; other site 340322002734 G3 box; other site 340322002735 Switch II region; other site 340322002736 G4 box; other site 340322002737 G5 box; other site 340322002738 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...; Region: Translation_Factor_II_like; cl02787 340322002739 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 340322002740 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 340322002741 putative ligand binding site [chemical binding]; other site 340322002742 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 340322002743 TM-ABC transporter signature motif; other site 340322002744 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 340322002745 TM-ABC transporter signature motif; other site 340322002746 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 340322002747 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 340322002748 Walker A/P-loop; other site 340322002749 ATP binding site [chemical binding]; other site 340322002750 Q-loop/lid; other site 340322002751 ABC transporter signature motif; other site 340322002752 Walker B; other site 340322002753 D-loop; other site 340322002754 H-loop/switch region; other site 340322002755 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 340322002756 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 340322002757 Walker A/P-loop; other site 340322002758 ATP binding site [chemical binding]; other site 340322002759 Q-loop/lid; other site 340322002760 ABC transporter signature motif; other site 340322002761 Walker B; other site 340322002762 D-loop; other site 340322002763 H-loop/switch region; other site 340322002764 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 340322002765 putative active site [active] 340322002766 catalytic residue [active] 340322002767 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 340322002768 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...; Region: NPD_like; cd04730 340322002769 FMN binding site [chemical binding]; other site 340322002770 substrate binding site [chemical binding]; other site 340322002771 putative catalytic residue [active] 340322002772 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 340322002773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322002774 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 340322002775 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 340322002776 putative active site [active] 340322002777 catalytic residue [active] 340322002778 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 340322002779 5S rRNA interface [nucleotide binding]; other site 340322002780 CTC domain interface; other site 340322002781 L16 interface [polypeptide binding]; other site 340322002782 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 340322002783 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 340322002784 Active site [active] 340322002785 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 340322002786 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322002787 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 340322002788 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 340322002789 Substrate binding site [chemical binding]; other site 340322002790 Mg++ binding site [ion binding]; other site 340322002791 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 340322002792 active site 340322002793 substrate binding site [chemical binding]; other site 340322002794 CoA binding site [chemical binding]; other site 340322002795 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322002796 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 340322002797 Multicopper oxidase; Region: Cu-oxidase; cl14658 340322002798 Multicopper oxidase; Region: Cu-oxidase; cl14658 340322002799 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322002800 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 340322002801 Walker A/P-loop; other site 340322002802 ATP binding site [chemical binding]; other site 340322002803 Q-loop/lid; other site 340322002804 ABC transporter signature motif; other site 340322002805 Walker B; other site 340322002806 D-loop; other site 340322002807 H-loop/switch region; other site 340322002808 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 340322002809 Histidine kinase; Region: HisKA_3; pfam07730 340322002810 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322002811 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 340322002812 active site 340322002813 phosphorylation site [posttranslational modification] 340322002814 intermolecular recognition site; other site 340322002815 dimerization interface [polypeptide binding]; other site 340322002816 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...; Region: LuxR_C_like; cd06170 340322002817 DNA binding residues [nucleotide binding] 340322002818 dimerization interface [polypeptide binding]; other site 340322002819 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 340322002820 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322002821 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322002822 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322002823 Q-loop/lid; other site 340322002824 ABC transporter signature motif; other site 340322002825 Walker B; other site 340322002826 D-loop; other site 340322002827 H-loop/switch region; other site 340322002828 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322002829 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322002830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322002831 Walker A/P-loop; other site 340322002832 ATP binding site [chemical binding]; other site 340322002833 Q-loop/lid; other site 340322002834 ABC transporter signature motif; other site 340322002835 Walker B; other site 340322002836 D-loop; other site 340322002837 H-loop/switch region; other site 340322002838 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 340322002839 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 340322002840 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 340322002841 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322002842 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322002843 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 340322002844 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 340322002845 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 340322002846 ATP binding site [chemical binding]; other site 340322002847 putative Mg++ binding site [ion binding]; other site 340322002848 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 340322002849 nucleotide binding region [chemical binding]; other site 340322002850 ATP-binding site [chemical binding]; other site 340322002851 TRCF domain; Region: TRCF; pfam03461 340322002852 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322002853 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322002854 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 340322002855 Walker A/P-loop; other site 340322002856 ATP binding site [chemical binding]; other site 340322002857 Q-loop/lid; other site 340322002858 ABC transporter signature motif; other site 340322002859 Walker B; other site 340322002860 D-loop; other site 340322002861 H-loop/switch region; other site 340322002862 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322002863 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322002864 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322002865 Walker A/P-loop; other site 340322002866 ATP binding site [chemical binding]; other site 340322002867 Q-loop/lid; other site 340322002868 ABC transporter signature motif; other site 340322002869 Walker B; other site 340322002870 D-loop; other site 340322002871 H-loop/switch region; other site 340322002872 Uncharacterized conserved protein [Function unknown]; Region: COG2898 340322002873 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 340322002874 Predicted esterase [General function prediction only]; Region: COG0627 340322002875 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322002876 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 340322002877 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 340322002878 Alpha helical Porin B; Region: PorB; pfam11565 340322002879 Alpha helical Porin B; Region: PorB; pfam11565 340322002880 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 340322002881 enolase; Provisional; Region: eno; PRK00077 340322002882 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 340322002883 dimer interface [polypeptide binding]; other site 340322002884 metal binding site [ion binding]; metal-binding site 340322002885 substrate binding pocket [chemical binding]; other site 340322002886 Septum formation initiator; Region: DivIC; cl11433 340322002887 Protein of unknown function (DUF501); Region: DUF501; cl00652 340322002888 exopolyphosphatase; Region: exo_poly_only; TIGR03706 340322002889 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 340322002890 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 340322002891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 340322002892 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cl00473 340322002893 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 340322002894 domain; Region: GreA_GreB_N; pfam03449 340322002895 C-term; Region: GreA_GreB; pfam01272 340322002896 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 340322002897 NeuB family; Region: NeuB; cl00496 340322002898 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 340322002899 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 340322002900 catalytic residue [active] 340322002901 putative FPP diphosphate binding site; other site 340322002902 putative FPP binding hydrophobic cleft; other site 340322002903 dimer interface [polypeptide binding]; other site 340322002904 putative IPP diphosphate binding site; other site 340322002905 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340322002906 pantothenate kinase; Provisional; Region: PRK05439 340322002907 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 in...; Region: PanK; cd02025 340322002908 ATP-binding site [chemical binding]; other site 340322002909 CoA-binding site [chemical binding]; other site 340322002910 Mg2+-binding site [ion binding]; other site 340322002911 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...; Region: SHMT; cd00378 340322002912 dimer interface [polypeptide binding]; other site 340322002913 glycine-pyridoxal phosphate binding site [chemical binding]; other site 340322002914 active site 340322002915 folate binding site [chemical binding]; other site 340322002916 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 340322002917 Glutamine amidotransferase class-I; Region: GATase; pfam00117 340322002918 glutamine binding [chemical binding]; other site 340322002919 catalytic triad [active] 340322002920 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 340322002921 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 340322002922 chorismate binding enzyme; Region: Chorismate_bind; cl10555 340322002923 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 340322002924 Aminotransferase class IV; Region: Aminotran_4; pfam01063 340322002925 substrate-cofactor binding pocket; other site 340322002926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322002927 catalytic residue [active] 340322002928 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 340322002929 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 340322002930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322002931 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 340322002932 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 340322002933 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 340322002934 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 340322002935 LamB/YcsF family; Region: LamB_YcsF; cl00664 340322002936 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 340322002937 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322002938 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322002939 DNA-binding site [nucleotide binding]; DNA binding site 340322002940 FCD domain; Region: FCD; cl11656 340322002941 fumarate hydratase; Reviewed; Region: fumC; PRK00485 340322002942 Class II fumarases; Region: Fumarase_classII; cd01362 340322002943 active site 340322002944 tetramer interface [polypeptide binding]; other site 340322002945 Flavin Reductases; Region: FlaRed; cl00801 340322002946 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340322002947 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 340322002948 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 340322002949 putative active site [active] 340322002950 MFS transport protein AraJ; Provisional; Region: PRK10091 340322002951 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322002952 putative substrate translocation pore; other site 340322002953 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322002954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322002955 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 340322002956 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 340322002957 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 340322002958 generic binding surface II; other site 340322002959 generic binding surface I; other site 340322002960 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 340322002961 LytB protein; Region: LYTB; cl00507 340322002962 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 340322002963 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322002964 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 340322002965 Domain of unknown function DUF20; Region: UPF0118; cl00465 340322002966 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 340322002967 Predicted esterase [General function prediction only]; Region: COG0627 340322002968 GTP-binding protein YchF; Reviewed; Region: PRK09601 340322002969 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 340322002970 G1 box; other site 340322002971 GTP/Mg2+ binding site [chemical binding]; other site 340322002972 Switch I region; other site 340322002973 G2 box; other site 340322002974 Switch II region; other site 340322002975 G3 box; other site 340322002976 G4 box; other site 340322002977 G5 box; other site 340322002978 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 340322002979 short chain dehydrogenase; Provisional; Region: PRK05693 340322002980 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 340322002981 NADP binding site [chemical binding]; other site 340322002982 active site 340322002983 steroid binding site; other site 340322002984 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322002985 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322002986 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322002987 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 340322002988 MASE1; Region: MASE1; pfam05231 340322002989 PAS domain S-box; Region: sensory_box; TIGR00229 340322002990 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 340322002991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 340322002992 metal binding site [ion binding]; metal-binding site 340322002993 active site 340322002994 I-site; other site 340322002995 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 340322002996 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 340322002997 DXD motif; other site 340322002998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322002999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003000 Domain of unknown function DUF108; Region: DUF108; pfam01958 340322003001 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 340322003002 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 340322003003 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...; Region: Nudix_Hydrolase; cl00447 340322003004 nudix motif; other site 340322003005 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 340322003006 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 340322003007 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 340322003008 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 340322003009 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003010 putative substrate translocation pore; other site 340322003011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322003012 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 340322003013 Protein of unknown function, DUF488; Region: DUF488; cl01246 340322003014 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 340322003015 NAD(P) binding site [chemical binding]; other site 340322003016 putative active site [active] 340322003017 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 340322003018 Sulfate transporter family; Region: Sulfate_transp; cl00967 340322003019 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 340322003020 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 340322003021 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 340322003022 metal ion-dependent adhesion site (MIDAS); other site 340322003023 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 340322003024 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003025 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 340322003026 catalytic core [active] 340322003027 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (...; Region: PI3Kc_like; cl00119 340322003028 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 340322003029 tetramer interface [polypeptide binding]; other site 340322003030 active site 340322003031 Mg2+/Mn2+ binding site [ion binding]; other site 340322003032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003033 Walker A/P-loop; other site 340322003034 ATP binding site [chemical binding]; other site 340322003035 Q-loop/lid; other site 340322003036 ABC transporter signature motif; other site 340322003037 Walker B; other site 340322003038 D-loop; other site 340322003039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003040 H-loop/switch region; other site 340322003041 ABC transporter; Region: ABC_tran_2; pfam12848 340322003042 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 340322003043 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 340322003044 OsmC-like protein; Region: OsmC; cl00767 340322003045 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 340322003046 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 340322003047 PhnA protein; Region: PhnA; pfam03831 340322003048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322003049 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322003050 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003051 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322003052 putative substrate translocation pore; other site 340322003053 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 340322003054 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 340322003055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322003056 catalytic residue [active] 340322003057 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06543 340322003058 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 5-...; Region: QPRTase; cd01572 340322003059 dimerization interface [polypeptide binding]; other site 340322003060 active site 340322003061 Quinolinate synthetase A protein; Region: NadA; cl00420 340322003062 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...; Region: Nudix_Hydrolase; cl00447 340322003063 nudix motif; other site 340322003064 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...; Region: Nudix_Hydrolase; cl00447 340322003065 Protein of unknown function, DUF606; Region: DUF606; cl01273 340322003066 Protein of unknown function, DUF606; Region: DUF606; cl01273 340322003067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322003068 Protein of unknown function (DUF419); Region: DUF419; cl09948 340322003069 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 340322003070 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340322003071 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 340322003072 dimer interface [polypeptide binding]; other site 340322003073 benzoate transport; Region: 2A0115; TIGR00895 340322003074 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003075 putative substrate translocation pore; other site 340322003076 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003077 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 340322003078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322003079 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 340322003080 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322003081 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 340322003082 Walker A/P-loop; other site 340322003083 ATP binding site [chemical binding]; other site 340322003084 Q-loop/lid; other site 340322003085 ABC transporter signature motif; other site 340322003086 Walker B; other site 340322003087 D-loop; other site 340322003088 H-loop/switch region; other site 340322003089 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 340322003090 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 340322003091 Walker A/P-loop; other site 340322003092 ATP binding site [chemical binding]; other site 340322003093 Q-loop/lid; other site 340322003094 ABC transporter signature motif; other site 340322003095 Walker B; other site 340322003096 D-loop; other site 340322003097 H-loop/switch region; other site 340322003098 Cobalt transport protein; Region: CbiQ; cl00463 340322003099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003100 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 340322003101 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 340322003102 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 340322003103 Predicted integral membrane protein [Function unknown]; Region: COG5522; cl02331 340322003104 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 340322003105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003106 Walker A/P-loop; other site 340322003107 ATP binding site [chemical binding]; other site 340322003108 Q-loop/lid; other site 340322003109 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003110 ABC transporter signature motif; other site 340322003111 Walker B; other site 340322003112 D-loop; other site 340322003113 H-loop/switch region; other site 340322003114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 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 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 340322003123 dimer interface [polypeptide binding]; other site 340322003124 catalytic triad [active] 340322003125 peroxidatic and resolving cysteines [active] 340322003126 Protein of unknown function (DUF808); Region: DUF808; cl01002 340322003127 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 340322003128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003129 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 340322003130 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 340322003131 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 340322003132 nudix motif; other site 340322003133 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 340322003134 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...; Region: Tryp_SPc; cl00149 340322003135 active site 340322003136 substrate binding sites [chemical binding]; other site 340322003137 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 340322003138 catalytic residues [active] 340322003139 Uncharacterized membrane protein [Function unknown]; Region: COG3949 340322003140 Protein of unknown function (DUF402); Region: DUF402; cl00979 340322003141 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 340322003142 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 340322003143 G1 box; other site 340322003144 GTP/Mg2+ binding site [chemical binding]; other site 340322003145 G2 box; other site 340322003146 Switch I region; other site 340322003147 G3 box; other site 340322003148 Switch II region; other site 340322003149 G4 box; other site 340322003150 G5 box; other site 340322003151 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 340322003152 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...; Region: BipA_TypA_C; cd03710 340322003153 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 340322003154 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 340322003155 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 340322003156 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 340322003157 Ferredoxin [Energy production and conversion]; Region: COG1146 340322003158 4Fe-4S binding domain; Region: Fer4; cl02805 340322003159 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 340322003160 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 340322003161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322003162 homodimer interface [polypeptide binding]; other site 340322003163 catalytic residue [active] 340322003164 GtrA-like protein; Region: GtrA; cl00971 340322003165 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...; Region: HNHc; cd00085 340322003166 active site 340322003167 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 340322003168 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 340322003169 putative trimer interface [polypeptide binding]; other site 340322003170 putative CoA binding site [chemical binding]; other site 340322003171 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322003172 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 340322003173 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 340322003174 putative trimer interface [polypeptide binding]; other site 340322003175 putative CoA binding site [chemical binding]; other site 340322003176 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 340322003177 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 340322003178 metal binding site [ion binding]; metal-binding site 340322003179 putative dimer interface [polypeptide binding]; other site 340322003180 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 340322003181 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 340322003182 substrate binding pocket [chemical binding]; other site 340322003183 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 340322003184 inhibitor binding site; inhibition site 340322003185 dimer interface [polypeptide binding]; other site 340322003186 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 340322003187 active site 340322003188 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 340322003189 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; cl12011 340322003190 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 340322003191 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 340322003192 active site 340322003193 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 340322003194 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 340322003195 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 340322003196 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 340322003197 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 340322003198 ligand binding site [chemical binding]; other site 340322003199 oligomer interface [polypeptide binding]; other site 340322003200 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 rate-...; Region: LbH_G1P_AT_C; cd04651 340322003201 sulfate 1 binding site; other site 340322003202 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 340322003203 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 340322003204 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322003205 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...; Region: Sigma70_r4; cd06171 340322003206 DNA binding residues [nucleotide binding] 340322003207 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl11829 340322003208 sec-independent translocase; Provisional; Region: tatB; PRK00182 340322003209 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 340322003210 Domain of unknown function DUF59; Region: DUF59; cl00941 340322003211 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 340322003212 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 340322003213 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 340322003214 MgtE intracellular N domain; Region: MgtE_N; cl15244 340322003215 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 340322003216 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...; Region: TM_ABC_iron-siderophores_like; cl00462 340322003217 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 340322003218 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 340322003219 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 340322003220 TPP-binding site [chemical binding]; other site 340322003221 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 340322003222 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003223 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322003224 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003225 Walker A/P-loop; other site 340322003226 ATP binding site [chemical binding]; other site 340322003227 Q-loop/lid; other site 340322003228 ABC transporter signature motif; other site 340322003229 Walker B; other site 340322003230 D-loop; other site 340322003231 H-loop/switch region; other site 340322003232 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322003233 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322003234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003235 Walker A/P-loop; other site 340322003236 ATP binding site [chemical binding]; other site 340322003237 Q-loop/lid; other site 340322003238 ABC transporter signature motif; other site 340322003239 Walker B; other site 340322003240 D-loop; other site 340322003241 H-loop/switch region; other site 340322003242 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 340322003243 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 340322003244 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 340322003245 shikimate binding site; other site 340322003246 NAD(P) binding site [chemical binding]; other site 340322003247 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 340322003248 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; cl12031 340322003249 substrate binding pocket [chemical binding]; other site 340322003250 catalytic triad [active] 340322003251 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 340322003252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003253 putative substrate translocation pore; other site 340322003254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003255 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 340322003256 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003257 putative substrate translocation pore; other site 340322003258 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 340322003259 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 catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 340322003260 THF binding site; other site 340322003261 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 340322003262 substrate binding site [chemical binding]; other site 340322003263 THF binding site; other site 340322003264 zinc-binding site [ion binding]; other site 340322003265 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322003266 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 340322003267 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 340322003268 active site 340322003269 nucleophile elbow; other site 340322003270 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322003271 Condensation domain; Region: Condensation; cl09290 340322003272 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322003273 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 340322003274 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003275 Q-loop/lid; other site 340322003276 ABC transporter signature motif; other site 340322003277 Walker B; other site 340322003278 D-loop; other site 340322003279 H-loop/switch region; other site 340322003280 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 340322003281 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322003282 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 340322003283 Walker A/P-loop; other site 340322003284 ATP binding site [chemical binding]; other site 340322003285 Q-loop/lid; other site 340322003286 ABC transporter signature motif; other site 340322003287 Walker B; other site 340322003288 D-loop; other site 340322003289 H-loop/switch region; other site 340322003290 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 340322003291 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 340322003292 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 340322003293 Predicted HKD family nuclease [DNA replication, recombination, and repair]; Region: COG3886 340322003294 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 340322003295 putative homodimer interface [polypeptide binding]; other site 340322003296 putative active site [active] 340322003297 catalytic site [active] 340322003298 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322003299 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 340322003300 ATP binding site [chemical binding]; other site 340322003301 putative Mg++ binding site [ion binding]; other site 340322003302 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 340322003303 nucleotide binding region [chemical binding]; other site 340322003304 ATP-binding site [chemical binding]; other site 340322003305 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 340322003306 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 340322003307 active site 340322003308 8-oxo-dGMP binding site [chemical binding]; other site 340322003309 nudix motif; other site 340322003310 metal binding site [ion binding]; metal-binding site 340322003311 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322003312 Amino acid permease; Region: AA_permease; pfam00324 340322003313 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 340322003314 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 340322003315 ATP binding site [chemical binding]; other site 340322003316 Mg++ binding site [ion binding]; other site 340322003317 motif III; other site 340322003318 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 340322003319 nucleotide binding region [chemical binding]; other site 340322003320 ATP-binding site [chemical binding]; other site 340322003321 DbpA RNA binding domain; Region: DbpA; pfam03880 340322003322 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322003323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322003324 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 340322003325 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322003326 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 340322003327 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 340322003328 active site 340322003329 dimer interface [polypeptide binding]; other site 340322003330 metal binding site [ion binding]; metal-binding site 340322003331 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; cl01383 340322003332 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 340322003333 Active site [active] 340322003334 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...; Region: HNHc; cl00083 340322003335 Sodium:solute symporter family; Region: SSF; cl00456 340322003336 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 340322003337 SNF2 Helicase protein; Region: DUF3670; pfam12419 340322003338 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 340322003339 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 340322003340 putative Mg++ binding site [ion binding]; other site 340322003341 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 340322003342 nucleotide binding region [chemical binding]; other site 340322003343 ATP-binding site [chemical binding]; other site 340322003344 Uncharacterized conserved protein [Function unknown]; Region: COG4279 340322003345 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 340322003346 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 340322003347 active site 340322003348 metal binding site [ion binding]; metal-binding site 340322003349 DNA binding site [nucleotide binding] 340322003350 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 340322003351 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003352 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340322003353 Uncharacterized conserved protein [Function unknown]; Region: COG4717 340322003354 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 340322003355 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; cl09110 340322003356 Transcriptional regulators [Transcription]; Region: MarR; COG1846 340322003357 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322003358 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 340322003359 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 340322003360 ligand binding site [chemical binding]; other site 340322003361 flexible hinge region; other site 340322003362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322003363 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 340322003364 metal-binding site [ion binding] 340322003365 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 340322003366 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322003367 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; cl11391 340322003368 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340322003369 synthetase active site [active] 340322003370 NTP binding site [chemical binding]; other site 340322003371 metal binding site [ion binding]; metal-binding site 340322003372 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 340322003373 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; cl12031 340322003374 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 340322003375 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 340322003376 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 340322003377 active site 340322003378 HIGH motif; other site 340322003379 KMSK motif region; other site 340322003380 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340322003381 tRNA binding surface [nucleotide binding]; other site 340322003382 anticodon binding site; other site 340322003383 diaminopimelate decarboxylase; Region: lysA; TIGR01048 340322003384 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 340322003385 active site 340322003386 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322003387 substrate binding site [chemical binding]; other site 340322003388 catalytic residues [active] 340322003389 dimer interface [polypeptide binding]; other site 340322003390 homoserine dehydrogenase; Provisional; Region: PRK06349 340322003391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003392 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 340322003393 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 340322003394 homoserine kinase; Provisional; Region: PRK01212 340322003395 Predicted transcriptional regulator [Transcription]; Region: COG2345 340322003396 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 340322003397 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 340322003398 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 340322003399 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 340322003400 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...; Region: MopB_Nitrate-R-NarG-like; cd02750 340322003401 [4Fe-4S] binding site [ion binding]; other site 340322003402 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 340322003403 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 340322003404 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 340322003405 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...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 340322003406 molybdopterin cofactor binding site; other site 340322003407 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 340322003408 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 340322003409 MPT binding site; other site 340322003410 trimer interface [polypeptide binding]; other site 340322003411 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...; Region: PAP2_acid_phosphatase; cd03397 340322003412 active site 340322003413 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 340322003414 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cl00185 340322003415 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322003416 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 340322003417 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322003418 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322003419 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 340322003420 Transporter associated domain; Region: CorC_HlyC; pfam03471 340322003421 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 340322003422 GTP binding site [chemical binding]; other site 340322003423 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 340322003424 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 340322003425 dimer interface [polypeptide binding]; other site 340322003426 putative functional site; other site 340322003427 putative MPT binding site; other site 340322003428 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 340322003429 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 340322003430 FeS/SAM binding site; other site 340322003431 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 340322003432 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05620 340322003433 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322003434 transcription termination factor Rho; Provisional; Region: PRK12678 340322003435 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 340322003436 transcription termination factor Rho; Provisional; Region: PRK12608 340322003437 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 340322003438 RNA binding site [nucleotide binding]; other site 340322003439 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...; Region: rho_factor; cd01128 340322003440 multimer interface [polypeptide binding]; other site 340322003441 Walker A motif; other site 340322003442 ATP binding site [chemical binding]; other site 340322003443 Walker B motif; other site 340322003444 peptide chain release factor 1; Validated; Region: prfA; PRK00591 340322003445 RF-1 domain; Region: RF-1; cl02875 340322003446 RF-1 domain; Region: RF-1; cl02875 340322003447 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 340322003448 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 340322003449 S-adenosylmethionine binding site [chemical binding]; other site 340322003450 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cl02586 340322003451 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 340322003452 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 340322003453 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 340322003454 Mg++ binding site [ion binding]; other site 340322003455 putative catalytic motif [active] 340322003456 substrate binding site [chemical binding]; other site 340322003457 ATP synthase A chain; Region: ATP-synt_A; cl00413 340322003458 ATP synthase subunit C; Region: ATP-synt_C; cl00466 340322003459 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 340322003460 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 340322003461 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 340322003462 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 340322003463 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 340322003464 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 340322003465 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 340322003466 beta subunit interaction interface [polypeptide binding]; other site 340322003467 Walker A motif; other site 340322003468 ATP binding site [chemical binding]; other site 340322003469 Walker B motif; other site 340322003470 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340322003471 ATP synthase; Region: ATP-synt; cl00365 340322003472 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 340322003473 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 340322003474 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 340322003475 alpha subunit interaction interface [polypeptide binding]; other site 340322003476 Walker A motif; other site 340322003477 ATP binding site [chemical binding]; other site 340322003478 Walker B motif; other site 340322003479 inhibitor binding site; inhibition site 340322003480 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340322003481 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 340322003482 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 340322003483 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 340322003484 Protein of unknown function DUF91; Region: DUF91; cl00709 340322003485 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 340322003486 dimer interface [polypeptide binding]; other site 340322003487 substrate binding site [chemical binding]; other site 340322003488 metal binding site [ion binding]; metal-binding site 340322003489 Domain of unknown function DUF77; Region: DUF77; cl00307 340322003490 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 340322003491 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 340322003492 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 340322003493 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322003494 dimer interface [polypeptide binding]; other site 340322003495 active site 340322003496 non-prolyl cis peptide bond; other site 340322003497 insertion regions; other site 340322003498 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 340322003499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322003500 dimer interface [polypeptide binding]; other site 340322003501 conserved gate region; other site 340322003502 putative PBP binding loops; other site 340322003503 ABC-ATPase subunit interface; other site 340322003504 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 340322003505 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 340322003506 Walker A/P-loop; other site 340322003507 ATP binding site [chemical binding]; other site 340322003508 Q-loop/lid; other site 340322003509 ABC transporter signature motif; other site 340322003510 Walker B; other site 340322003511 D-loop; other site 340322003512 H-loop/switch region; other site 340322003513 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 340322003514 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...; Region: PBPb; cd00134 340322003515 substrate binding pocket [chemical binding]; other site 340322003516 membrane-bound complex binding site; other site 340322003517 hinge residues; other site 340322003518 glycogen branching enzyme; Provisional; Region: PRK05402 340322003519 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 340322003520 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 340322003521 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 340322003522 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 340322003523 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 340322003524 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 340322003525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003526 Walker A/P-loop; other site 340322003527 ATP binding site [chemical binding]; other site 340322003528 Q-loop/lid; other site 340322003529 ABC transporter signature motif; other site 340322003530 Walker B; other site 340322003531 D-loop; other site 340322003532 H-loop/switch region; other site 340322003533 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 340322003534 Ligand binding site [chemical binding]; other site 340322003535 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 340322003536 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 340322003537 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 340322003538 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 340322003539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322003540 catalytic residue [active] 340322003541 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 340322003542 HipA N-terminal domain; Region: couple_hipA; TIGR03071 340322003543 HipA-like N-terminal domain; Region: HipA_N; pfam07805 340322003544 HipA-like C-terminal domain; Region: HipA_C; pfam07804 340322003545 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 340322003546 non-specific DNA binding site [nucleotide binding]; other site 340322003547 salt bridge; other site 340322003548 sequence-specific DNA binding site [nucleotide binding]; other site 340322003549 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322003550 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; cl12011 340322003551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003552 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 340322003553 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 340322003554 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 340322003555 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...; Region: URO-D_CIMS_like; cl00464 340322003556 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003557 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003558 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 340322003559 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 340322003560 active site 340322003561 substrate binding site [chemical binding]; other site 340322003562 catalytic site [active] 340322003563 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 340322003564 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 340322003565 nucleotide binding pocket [chemical binding]; other site 340322003566 K-X-D-G motif; other site 340322003567 catalytic site [active] 340322003568 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 340322003569 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 340322003570 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 340322003571 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 340322003572 Dimer interface [polypeptide binding]; other site 340322003573 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 340322003574 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 340322003575 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 340322003576 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 340322003577 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 340322003578 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 340322003579 FAD binding pocket [chemical binding]; other site 340322003580 FAD binding motif [chemical binding]; other site 340322003581 phosphate binding motif [ion binding]; other site 340322003582 NAD binding pocket [chemical binding]; other site 340322003583 6-phosphofructokinase; Provisional; Region: PRK03202 340322003584 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 340322003585 active site 340322003586 ADP/pyrophosphate binding site [chemical binding]; other site 340322003587 dimerization interface [polypeptide binding]; other site 340322003588 allosteric effector site; other site 340322003589 fructose-1,6-bisphosphate binding site; other site 340322003590 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322003591 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322003592 DNA binding site [nucleotide binding] 340322003593 domain linker motif; other site 340322003594 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 340322003595 dimerization interface [polypeptide binding]; other site 340322003596 putative ligand binding site [chemical binding]; other site 340322003597 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 340322003598 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 340322003599 Walker A/P-loop; other site 340322003600 ATP binding site [chemical binding]; other site 340322003601 Q-loop/lid; other site 340322003602 ABC transporter signature motif; other site 340322003603 Walker B; other site 340322003604 D-loop; other site 340322003605 H-loop/switch region; other site 340322003606 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 340322003607 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 340322003608 TM-ABC transporter signature motif; other site 340322003609 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 340322003610 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 340322003611 ligand binding site [chemical binding]; other site 340322003612 dimerization interface [polypeptide binding]; other site 340322003613 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 340322003614 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 340322003615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322003616 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322003617 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...; Region: FhuD; cd01146 340322003618 siderophore binding site; other site 340322003619 Membrane transport protein; Region: Mem_trans; cl09117 340322003620 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 340322003621 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 340322003622 GatB domain; Region: GatB_Yqey; cl11497 340322003623 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 340322003624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003625 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...; Region: Aldo_ket_red; cd06660 340322003626 active site 340322003627 catalytic tetrad [active] 340322003628 LysE type translocator; Region: LysE; cl00565 340322003629 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 340322003630 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322003631 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 340322003632 dimerization interface [polypeptide binding]; other site 340322003633 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 340322003634 GST_C family, ECM4-like subfamily; composed of predominantly uncharacterized and taxonomically diverse proteins with similarity to the translation product of the Saccharomyces cerevisiae gene ECM4. ECM4, a gene of unknown function, is involved in cell...; Region: GST_C_ECM4_like; cd03190 340322003635 Domain of unknown function (DUF1994); Region: DUF1994; pfam09352 340322003636 DoxX; Region: DoxX; cl00976 340322003637 Dehydratase family; Region: ILVD_EDD; cl00340 340322003638 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 340322003639 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 340322003640 Mechanosensitive ion channel; Region: MS_channel; pfam00924 340322003641 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 340322003642 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 340322003643 PYR/PP interface [polypeptide binding]; other site 340322003644 dimer interface [polypeptide binding]; other site 340322003645 TPP binding site [chemical binding]; other site 340322003646 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 340322003647 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 340322003648 TPP-binding site [chemical binding]; other site 340322003649 dimer interface [polypeptide binding]; other site 340322003650 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 340322003651 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 340322003652 putative valine binding site [chemical binding]; other site 340322003653 dimer interface [polypeptide binding]; other site 340322003654 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 340322003655 ketol-acid reductoisomerase; Provisional; Region: PRK05479 340322003656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003657 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 340322003658 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003659 ABC transporter signature motif; other site 340322003660 Walker B; other site 340322003661 D-loop; other site 340322003662 H-loop/switch region; other site 340322003663 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 340322003664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322003665 Walker A/P-loop; other site 340322003666 ATP binding site [chemical binding]; other site 340322003667 Q-loop/lid; other site 340322003668 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322003669 dimer interface [polypeptide binding]; other site 340322003670 conserved gate region; other site 340322003671 putative PBP binding loops; other site 340322003672 ABC-ATPase subunit interface; other site 340322003673 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 340322003674 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 340322003675 Flavin Reductases; Region: FlaRed; cl00801 340322003676 Cation efflux family; Region: Cation_efflux; cl00316 340322003677 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 340322003678 Protein of unknown function DUF262; Region: DUF262; cl14890 340322003679 Uncharacterized conserved protein (DUF2081); Region: DUF2081; cl09179 340322003680 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 340322003681 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 340322003682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003683 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 340322003684 putative L-serine binding site [chemical binding]; other site 340322003685 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 340322003686 isocitrate dehydrogenase; Validated; Region: PRK06451 340322003687 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 340322003688 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 340322003689 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 340322003690 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 340322003691 ligand binding site [chemical binding]; other site 340322003692 flexible hinge region; other site 340322003693 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 340322003694 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322003695 metal binding triad; other site 340322003696 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 340322003697 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 340322003698 active site 340322003699 substrate binding site [chemical binding]; other site 340322003700 catalytic site [active] 340322003701 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 340322003702 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 340322003703 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 340322003704 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 340322003705 S-adenosylmethionine binding site [chemical binding]; other site 340322003706 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 340322003707 chorismate binding enzyme; Region: Chorismate_bind; cl10555 340322003708 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 340322003709 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340322003710 active site 340322003711 HIGH motif; other site 340322003712 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340322003713 active site 340322003714 KMSKS motif; other site 340322003715 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 340322003716 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 340322003717 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 340322003718 putative hydrophobic ligand binding site [chemical binding]; other site 340322003719 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322003720 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322003721 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 340322003722 ThiC family; Region: ThiC; cl08031 340322003723 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 340322003724 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 340322003725 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322003726 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK08762 340322003727 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 340322003728 active site residue [active] 340322003729 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 340322003730 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 340322003731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322003732 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322003733 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322003734 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 340322003735 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 340322003736 substrate binding site [chemical binding]; other site 340322003737 ligand binding site [chemical binding]; other site 340322003738 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 3-...; Region: IPMI_Swivel; cd01577 340322003739 substrate binding site [chemical binding]; other site 340322003740 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 340322003741 active site 340322003742 Ap6A binding site [chemical binding]; other site 340322003743 nudix motif; other site 340322003744 metal binding site [ion binding]; metal-binding site 340322003745 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 340322003746 catalytic core [active] 340322003747 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 340322003748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003749 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 340322003750 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 340322003751 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 340322003752 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322003753 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 340322003754 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 340322003755 thiamine monophosphate kinase; Provisional; Region: PRK05731 340322003756 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 340322003757 ATP binding site [chemical binding]; other site 340322003758 dimerization interface [polypeptide binding]; other site 340322003759 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 340322003760 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 340322003761 DAK2 domain; Region: Dak2; cl03685 340322003762 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 340322003763 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 four-...; Region: RecG_wedge_OBF; cd04488 340322003764 generic binding surface II; other site 340322003765 ssDNA binding site; other site 340322003766 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 340322003767 ATP binding site [chemical binding]; other site 340322003768 putative Mg++ binding site [ion binding]; other site 340322003769 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 340322003770 nucleotide binding region [chemical binding]; other site 340322003771 ATP-binding site [chemical binding]; other site 340322003772 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 340322003773 carboxyltransferase (CT) interaction site; other site 340322003774 biotinylation site [posttranslational modification]; other site 340322003775 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; cl12011 340322003776 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 340322003777 active site 340322003778 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 340322003779 (T/H)XGH motif; other site 340322003780 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 340322003781 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 340322003782 Walker A/P-loop; other site 340322003783 ATP binding site [chemical binding]; other site 340322003784 Q-loop/lid; other site 340322003785 ABC transporter signature motif; other site 340322003786 Walker B; other site 340322003787 D-loop; other site 340322003788 H-loop/switch region; other site 340322003789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322003790 dimer interface [polypeptide binding]; other site 340322003791 conserved gate region; other site 340322003792 putative PBP binding loops; other site 340322003793 ABC-ATPase subunit interface; other site 340322003794 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...; Region: PBPb; cd00134 340322003795 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 340322003796 substrate binding pocket [chemical binding]; other site 340322003797 membrane-bound complex binding site; other site 340322003798 hinge residues; other site 340322003799 Domain of unknown function (DUF368); Region: DUF368; cl00893 340322003800 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 340322003801 DNA binding site [nucleotide binding] 340322003802 Int/Topo IB signature motif; other site 340322003803 active site 340322003804 putative transposase OrfB; Reviewed; Region: PHA02517 340322003805 Integrase core domain; Region: rve; cl01316 340322003806 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; cl01116 340322003807 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 340322003808 putative assembly protein; Provisional; Region: PRK10833 340322003809 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...; Region: Tryp_SPc; cl00149 340322003810 DNA polymerase I; Provisional; Region: PRK05755 340322003811 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 340322003812 active site 340322003813 metal binding site 1 [ion binding]; metal-binding site 340322003814 putative 5' ssDNA interaction site; other site 340322003815 metal binding site 3; metal-binding site 340322003816 metal binding site 2 [ion binding]; metal-binding site 340322003817 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 340322003818 putative DNA binding site [nucleotide binding]; other site 340322003819 putative metal binding site [ion binding]; other site 340322003820 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 340322003821 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 340322003822 active site 340322003823 DNA binding site [nucleotide binding] 340322003824 catalytic site [active] 340322003825 putative transporter; Provisional; Region: PRK10504 340322003826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003827 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 340322003828 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...; Region: Aldo_ket_red; cd06660 340322003829 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322003830 active site 340322003831 catalytic tetrad [active] 340322003832 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 340322003833 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 340322003834 S-adenosylmethionine binding site [chemical binding]; other site 340322003835 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 340322003836 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 340322003837 RNA binding site [nucleotide binding]; other site 340322003838 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 340322003839 RNA binding site [nucleotide binding]; other site 340322003840 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 340322003841 RNA binding site [nucleotide binding]; other site 340322003842 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 340322003843 RNA binding site [nucleotide binding]; other site 340322003844 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...; Region: PTS_IIB_glc; cd00212 340322003845 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 340322003846 active site turn [active] 340322003847 phosphorylation site [posttranslational modification] 340322003848 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 340322003849 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 340322003850 HPr interaction site; other site 340322003851 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322003852 active site 340322003853 phosphorylation site [posttranslational modification] 340322003854 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 340322003855 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 340322003856 CoA-binding site [chemical binding]; other site 340322003857 ATP-binding [chemical binding]; other site 340322003858 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 340322003859 active site 340322003860 tetramer interface [polypeptide binding]; other site 340322003861 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 340322003862 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322003863 putative substrate translocation pore; other site 340322003864 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...; Region: ribokinase; cd01174 340322003865 substrate binding site [chemical binding]; other site 340322003866 dimer interface [polypeptide binding]; other site 340322003867 ATP binding site [chemical binding]; other site 340322003868 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322003869 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322003870 DNA binding site [nucleotide binding] 340322003871 domain linker motif; other site 340322003872 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 340322003873 dimerization interface [polypeptide binding]; other site 340322003874 putative ligand binding site [chemical binding]; other site 340322003875 excinuclease ABC subunit B; Provisional; Region: PRK05298 340322003876 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 340322003877 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 340322003878 nucleotide binding region [chemical binding]; other site 340322003879 ATP-binding site [chemical binding]; other site 340322003880 Ultra-violet resistance protein B; Region: UvrB; pfam12344 340322003881 UvrB/uvrC motif; Region: UVR; pfam02151 340322003882 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 340322003883 Ligand Binding Site [chemical binding]; other site 340322003884 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322003885 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 340322003886 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 340322003887 NADP binding site [chemical binding]; other site 340322003888 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 340322003889 UvrD/REP helicase; Region: UvrD-helicase; cl14126 340322003890 UvrD/REP helicase; Region: UvrD-helicase; cl14126 340322003891 DoxX; Region: DoxX; cl00976 340322003892 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322003893 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 340322003894 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 340322003895 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 340322003896 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 340322003897 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 340322003898 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 340322003899 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 340322003900 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 340322003901 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 340322003902 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 340322003903 23S rRNA binding site [nucleotide binding]; other site 340322003904 L21 binding site [polypeptide binding]; other site 340322003905 L13 binding site [polypeptide binding]; other site 340322003906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322003907 dimer interface [polypeptide binding]; other site 340322003908 conserved gate region; other site 340322003909 putative PBP binding loops; other site 340322003910 ABC-ATPase subunit interface; other site 340322003911 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322003912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322003913 dimer interface [polypeptide binding]; other site 340322003914 conserved gate region; other site 340322003915 putative PBP binding loops; other site 340322003916 ABC-ATPase subunit interface; other site 340322003917 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 340322003918 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 340322003919 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322003920 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 340322003921 Walker A/P-loop; other site 340322003922 ATP binding site [chemical binding]; other site 340322003923 Q-loop/lid; other site 340322003924 ABC transporter signature motif; other site 340322003925 Walker B; other site 340322003926 D-loop; other site 340322003927 H-loop/switch region; other site 340322003928 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 340322003929 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 340322003930 active site 340322003931 catalytic site [active] 340322003932 metal binding site [ion binding]; metal-binding site 340322003933 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340322003934 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 340322003935 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340322003936 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 340322003937 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 340322003938 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 340322003939 dimer interface [polypeptide binding]; other site 340322003940 motif 1; other site 340322003941 active site 340322003942 motif 2; other site 340322003943 motif 3; other site 340322003944 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 340322003945 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 340322003946 putative tRNA-binding site [nucleotide binding]; other site 340322003947 B3/4 domain; Region: B3_4; cl11458 340322003948 tRNA synthetase B5 domain; Region: B5; cl08394 340322003949 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 340322003950 dimer interface [polypeptide binding]; other site 340322003951 motif 1; other site 340322003952 motif 3; other site 340322003953 motif 2; other site 340322003954 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 340322003955 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 340322003956 active site 340322003957 catalytic triad [active] 340322003958 oxyanion hole [active] 340322003959 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 340322003960 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 340322003961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322003962 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 340322003963 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...; Region: OAT; cd02152 340322003964 heterotetramer interface [polypeptide binding]; other site 340322003965 active site pocket [active] 340322003966 cleavage site 340322003967 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...; Region: AAK_NAGK-C; cd04250 340322003968 feedback inhibition sensing region; other site 340322003969 homohexameric interface [polypeptide binding]; other site 340322003970 nucleotide binding site [chemical binding]; other site 340322003971 N-acetyl-L-glutamate binding site [chemical binding]; other site 340322003972 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 340322003973 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 340322003974 inhibitor-cofactor binding pocket; inhibition site 340322003975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322003976 catalytic residue [active] 340322003977 ornithine carbamoyltransferase; Provisional; Region: PRK00779 340322003978 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322003979 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 340322003980 arginine repressor; Provisional; Region: PRK03341 340322003981 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 340322003982 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 340322003983 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 340322003984 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 340322003985 ANP binding site [chemical binding]; other site 340322003986 Substrate Binding Site II [chemical binding]; other site 340322003987 Substrate Binding Site I [chemical binding]; other site 340322003988 argininosuccinate lyase; Provisional; Region: PRK00855 340322003989 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 340322003990 active sites [active] 340322003991 tetramer interface [polypeptide binding]; other site 340322003992 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 340322003993 metal ion-dependent adhesion site (MIDAS); other site 340322003994 Trm112p-like protein; Region: Trm112p; cl01066 340322003995 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 340322003996 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 340322003997 active site 340322003998 HIGH motif; other site 340322003999 dimer interface [polypeptide binding]; other site 340322004000 KMSKS motif; other site 340322004001 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 340322004002 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 340322004003 Ligand Binding Site [chemical binding]; other site 340322004004 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 340322004005 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 340322004006 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 340322004007 active site 340322004008 motif I; other site 340322004009 motif II; other site 340322004010 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; cl11391 340322004011 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 340322004012 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 340322004013 RNA binding surface [nucleotide binding]; other site 340322004014 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; cl12011 340322004015 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 340322004016 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 340322004017 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 340322004018 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 340322004019 Walker A/P-loop; other site 340322004020 ATP binding site [chemical binding]; other site 340322004021 Q-loop/lid; other site 340322004022 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 340322004023 ABC transporter signature motif; other site 340322004024 Walker B; other site 340322004025 D-loop; other site 340322004026 H-loop/switch region; other site 340322004027 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 340322004028 Thiamine pyrophosphokinase; Region: TPK; cl09135 340322004029 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 340322004030 CTP synthetase; Validated; Region: pyrG; PRK05380 340322004031 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...; Region: CTGs; cd03113 340322004032 Catalytic site [active] 340322004033 Active site [active] 340322004034 UTP binding site [chemical binding]; other site 340322004035 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 340322004036 active site 340322004037 putative oxyanion hole; other site 340322004038 catalytic triad [active] 340322004039 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...; Region: ADPRase_NUDT5; cd03424 340322004040 dimer interface [polypeptide binding]; other site 340322004041 ADP-ribose binding site [chemical binding]; other site 340322004042 active site 340322004043 nudix motif; other site 340322004044 metal binding site [ion binding]; metal-binding site 340322004045 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 340322004046 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 340322004047 Int/Topo IB signature motif; other site 340322004048 active site 340322004049 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322004050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322004051 Walker A/P-loop; other site 340322004052 ATP binding site [chemical binding]; other site 340322004053 Q-loop/lid; other site 340322004054 ABC transporter signature motif; other site 340322004055 Walker B; other site 340322004056 D-loop; other site 340322004057 H-loop/switch region; other site 340322004058 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 340322004059 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 340322004060 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...; Region: ParA; cd02042 340322004061 P-loop; other site 340322004062 Magnesium ion binding site [ion binding]; other site 340322004063 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...; Region: ParA; cd02042 340322004064 Magnesium ion binding site [ion binding]; other site 340322004065 ScpA/B protein; Region: ScpA_ScpB; cl00598 340322004066 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 340322004067 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 340322004068 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...; Region: TST_Repeat_1; cd01448 340322004069 active site residue [active] 340322004070 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 340322004071 active site residue [active] 340322004072 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 340322004073 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 340322004074 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 340322004075 RNA binding surface [nucleotide binding]; other site 340322004076 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 340322004077 active site 340322004078 cytidylate kinase; Provisional; Region: cmk; PRK00023 340322004079 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 340322004080 CMP-binding site; other site 340322004081 The sites determining sugar specificity; other site 340322004082 GTP-binding protein Der; Reviewed; Region: PRK03003 340322004083 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 340322004084 G1 box; other site 340322004085 GTP/Mg2+ binding site [chemical binding]; other site 340322004086 Switch I region; other site 340322004087 G2 box; other site 340322004088 Switch II region; other site 340322004089 G3 box; other site 340322004090 G4 box; other site 340322004091 G5 box; other site 340322004092 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 340322004093 G1 box; other site 340322004094 GTP/Mg2+ binding site [chemical binding]; other site 340322004095 Switch I region; other site 340322004096 G2 box; other site 340322004097 G3 box; other site 340322004098 Switch II region; other site 340322004099 G4 box; other site 340322004100 G5 box; other site 340322004101 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 340322004102 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 340322004103 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 340322004104 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; cl12011 340322004105 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322004106 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322004107 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 340322004108 Q-loop/lid; other site 340322004109 ABC transporter signature motif; other site 340322004110 Walker B; other site 340322004111 D-loop; other site 340322004112 H-loop/switch region; other site 340322004113 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322004114 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322004115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322004116 Walker A/P-loop; other site 340322004117 ATP binding site [chemical binding]; other site 340322004118 Q-loop/lid; other site 340322004119 ABC transporter signature motif; other site 340322004120 Walker B; other site 340322004121 D-loop; other site 340322004122 H-loop/switch region; other site 340322004123 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 340322004124 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 340322004125 SEC-C motif; Region: SEC-C; cl12132 340322004126 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 340322004127 OsmC-like protein; Region: OsmC; cl00767 340322004128 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 340322004129 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 340322004130 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; cl14882 340322004131 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 340322004132 phosphopeptide binding site; other site 340322004133 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 340322004134 DNA binding residues [nucleotide binding] 340322004135 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 340322004136 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 340322004137 DNA binding residues [nucleotide binding] 340322004138 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322004139 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322004140 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 340322004141 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322004142 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322004143 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 340322004144 Transporter associated domain; Region: CorC_HlyC; pfam03471 340322004145 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 340322004146 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340322004147 ATP binding site [chemical binding]; other site 340322004148 Mg++ binding site [ion binding]; other site 340322004149 motif III; other site 340322004150 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 340322004151 nucleotide binding region [chemical binding]; other site 340322004152 ATP-binding site [chemical binding]; other site 340322004153 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 340322004154 FAD binding pocket [chemical binding]; other site 340322004155 FAD binding motif [chemical binding]; other site 340322004156 phosphate binding motif [ion binding]; other site 340322004157 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...; Region: FNR_like; cl06868 340322004158 NAD binding pocket [chemical binding]; other site 340322004159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322004160 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 340322004161 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 340322004162 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 340322004163 CoenzymeA binding site [chemical binding]; other site 340322004164 subunit interaction site [polypeptide binding]; other site 340322004165 PHB binding site; other site 340322004166 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 340322004167 S-adenosylmethionine binding site [chemical binding]; other site 340322004168 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 340322004169 PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 340322004170 Walker A/P-loop; other site 340322004171 ATP binding site [chemical binding]; other site 340322004172 Q-loop/lid; other site 340322004173 ABC transporter signature motif; other site 340322004174 Walker B; other site 340322004175 D-loop; other site 340322004176 H-loop/switch region; other site 340322004177 ABC-2 type transporter; Region: ABC2_membrane; cl11417 340322004178 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 340322004179 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...; Region: SIS_RpiR; cd05013 340322004180 putative active site [active] 340322004181 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322004182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322004183 dimer interface [polypeptide binding]; other site 340322004184 conserved gate region; other site 340322004185 ABC-ATPase subunit interface; other site 340322004186 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322004187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 340322004188 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 340322004189 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 340322004190 Walker A/P-loop; other site 340322004191 ATP binding site [chemical binding]; other site 340322004192 Q-loop/lid; other site 340322004193 ABC transporter signature motif; other site 340322004194 Walker B; other site 340322004195 D-loop; other site 340322004196 H-loop/switch region; other site 340322004197 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 340322004198 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 340322004199 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 340322004200 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; cl11391 340322004201 motif I; other site 340322004202 active site 340322004203 multifunctional thiamine-phosphate pyrophosphorylase/synthase/phosphomethylpyrimidine kinase; Provisional; Region: PRK09517 340322004204 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- (beta-...; Region: TMP_TenI; cd00564 340322004205 thiamine phosphate binding site [chemical binding]; other site 340322004206 active site 340322004207 pyrophosphate binding site [ion binding]; other site 340322004208 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 340322004209 dimer interface [polypeptide binding]; other site 340322004210 substrate binding site [chemical binding]; other site 340322004211 ATP binding site [chemical binding]; other site 340322004212 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; cl15243 340322004213 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 340322004214 substrate binding site [chemical binding]; other site 340322004215 multimerization interface [polypeptide binding]; other site 340322004216 ATP binding site [chemical binding]; other site 340322004217 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 340322004218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322004219 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322004220 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 340322004221 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 340322004222 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322004223 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322004224 putative substrate translocation pore; other site 340322004225 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322004226 Predicted membrane protein [Function unknown]; Region: COG1971 340322004227 Domain of unknown function DUF; Region: DUF204; pfam02659 340322004228 Domain of unknown function DUF; Region: DUF204; pfam02659 340322004229 Membrane transport protein; Region: Mem_trans; cl09117 340322004230 A new structural DNA glycosylase; Region: AlkD_like; cd06561 340322004231 Active site [active] 340322004232 high affinity sulphate transporter 1; Region: sulP; TIGR00815 340322004233 Sulfate transporter family; Region: Sulfate_transp; cl00967 340322004234 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 340322004235 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 340322004236 YceI-like domain; Region: YceI; cl01001 340322004237 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 340322004238 Ligand binding site [chemical binding]; other site 340322004239 Putative Catalytic site [active] 340322004240 DXD motif; other site 340322004241 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 340322004242 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 340322004243 putative active site [active] 340322004244 catalytic triad [active] 340322004245 putative dimer interface [polypeptide binding]; other site 340322004246 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 340322004247 Secretory lipase; Region: LIP; pfam03583 340322004248 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 340322004249 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340322004250 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 340322004251 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 340322004252 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; cl12011 340322004253 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 340322004254 classical (c) SDRs; Region: SDR_c; cd05233 340322004255 NAD(P) binding site [chemical binding]; other site 340322004256 active site 340322004257 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340322004258 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 340322004259 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 340322004260 active site 340322004261 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...; Region: Tryp_SPc; cl00149 340322004262 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 340322004263 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 340322004264 ATP binding site [chemical binding]; other site 340322004265 putative Mg++ binding site [ion binding]; other site 340322004266 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 340322004267 nucleotide binding region [chemical binding]; other site 340322004268 ATP-binding site [chemical binding]; other site 340322004269 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 340322004270 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 340322004271 Predicted transcriptional regulator [Transcription]; Region: COG2378 340322004272 Predicted transcriptional regulator [Transcription]; Region: COG2378 340322004273 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 340322004274 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 340322004275 Pup-like protein; Region: Pup; cl05289 340322004276 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 340322004277 Pup-ligase protein; Region: Pup_ligase; pfam03136 340322004278 proteasome ATPase; Region: pup_AAA; TIGR03689 340322004279 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...; Region: AAA; cd00009 340322004280 Walker A motif; other site 340322004281 ATP binding site [chemical binding]; other site 340322004282 Walker B motif; other site 340322004283 arginine finger; other site 340322004284 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 340322004285 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 340322004286 S-adenosylmethionine binding site [chemical binding]; other site 340322004287 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 340322004288 active site 340322004289 metal binding site [ion binding]; metal-binding site 340322004290 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 340322004291 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 340322004292 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322004293 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322004294 putative substrate translocation pore; other site 340322004295 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 340322004296 Aspartase; Region: Aspartase; cd01357 340322004297 active sites [active] 340322004298 tetramer interface [polypeptide binding]; other site 340322004299 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 340322004300 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 340322004301 HisG, C-terminal domain; Region: HisG_C; cl06867 340322004302 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 340322004303 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 340322004304 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 340322004305 motif II; other site 340322004306 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 340322004307 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 340322004308 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 340322004309 substrate binding pocket [chemical binding]; other site 340322004310 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 340322004311 B12 binding site [chemical binding]; other site 340322004312 cobalt ligand [ion binding]; other site 340322004313 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 340322004314 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322004315 Membrane transport protein; Region: Mem_trans; cl09117 340322004316 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322004317 Active site [active] 340322004318 Low molecular weight phosphatase family; Region: LMWPc; cl00105 340322004319 Active site [active] 340322004320 cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase; Region: mycothiol_MshC; TIGR03447 340322004321 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322004322 active site 340322004323 HIGH motif; other site 340322004324 nucleotide binding site [chemical binding]; other site 340322004325 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322004326 active site 340322004327 KMSKS motif; other site 340322004328 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340322004329 tRNA binding surface [nucleotide binding]; other site 340322004330 anticodon binding site; other site 340322004331 Bacitracin resistance protein BacA; Region: BacA; cl00858 340322004332 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 340322004333 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...; Region: Aldo_ket_red; cd06660 340322004334 active site 340322004335 catalytic tetrad [active] 340322004336 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...; Region: DHOD_2_like; cd04738 340322004337 quinone interaction residues [chemical binding]; other site 340322004338 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 340322004339 active site 340322004340 catalytic residues [active] 340322004341 FMN binding site [chemical binding]; other site 340322004342 substrate binding site [chemical binding]; other site 340322004343 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 340322004344 substrate binding site [chemical binding]; other site 340322004345 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322004346 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322004347 Walker A/P-loop; other site 340322004348 ATP binding site [chemical binding]; other site 340322004349 Q-loop/lid; other site 340322004350 ABC transporter signature motif; other site 340322004351 Walker B; other site 340322004352 D-loop; other site 340322004353 H-loop/switch region; other site 340322004354 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 340322004355 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322004356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322004357 Q-loop/lid; other site 340322004358 ABC transporter signature motif; other site 340322004359 Walker B; other site 340322004360 D-loop; other site 340322004361 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322004362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322004363 membrane ATPase/protein kinase; Provisional; Region: PRK09435 340322004364 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 340322004365 Walker A; other site 340322004366 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 340322004367 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...; Region: MM_CoA_mutase_alpha_like; cd03679 340322004368 active site 340322004369 substrate binding site [chemical binding]; other site 340322004370 coenzyme B12 binding site [chemical binding]; other site 340322004371 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...; Region: MM_CoA_mut_B12_BD; cd02071 340322004372 B12 binding site [chemical binding]; other site 340322004373 cobalt ligand [ion binding]; other site 340322004374 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 340322004375 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 340322004376 heterodimer interface [polypeptide binding]; other site 340322004377 substrate interaction site [chemical binding]; other site 340322004378 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 340322004379 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 340322004380 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 340322004381 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 340322004382 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 340322004383 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 340322004384 ferrochelatase; Reviewed; Region: hemH; PRK00035 340322004385 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 340322004386 C-terminal domain interface [polypeptide binding]; other site 340322004387 active site 340322004388 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 340322004389 active site 340322004390 N-terminal domain interface [polypeptide binding]; other site 340322004391 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340322004392 NlpC/P60 family; Region: NLPC_P60; cl11438 340322004393 aconitate hydratase; Validated; Region: PRK09277 340322004394 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 340322004395 substrate binding site [chemical binding]; other site 340322004396 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 340322004397 ligand binding site [chemical binding]; other site 340322004398 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 340322004399 substrate binding site [chemical binding]; other site 340322004400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322004401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322004402 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 340322004403 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 340322004404 catalytic triad [active] 340322004405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322004406 NAD(P) binding site [chemical binding]; other site 340322004407 active site 340322004408 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 340322004409 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 340322004410 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 340322004411 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 340322004412 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340322004413 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; cl11391 340322004414 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 340322004415 Domain of unknown function (DUF1990); Region: DUF1990; cl01969 340322004416 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322004417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322004418 Walker A/P-loop; other site 340322004419 ATP binding site [chemical binding]; other site 340322004420 Q-loop/lid; other site 340322004421 ABC transporter signature motif; other site 340322004422 Walker B; other site 340322004423 D-loop; other site 340322004424 H-loop/switch region; other site 340322004425 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 340322004426 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 340322004427 catalytic site [active] 340322004428 Asp-box motif; other site 340322004429 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 340322004430 Domain of unknown function DUF59; Region: DUF59; cl00941 340322004431 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 340322004432 trimerization site [polypeptide binding]; other site 340322004433 active site 340322004434 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 340322004435 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 340322004436 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340322004437 catalytic residue [active] 340322004438 FeS assembly ATPase SufC; Region: sufC; TIGR01978 340322004439 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 340322004440 Walker A/P-loop; other site 340322004441 ATP binding site [chemical binding]; other site 340322004442 Q-loop/lid; other site 340322004443 ABC transporter signature motif; other site 340322004444 Walker B; other site 340322004445 D-loop; other site 340322004446 H-loop/switch region; other site 340322004447 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 340322004448 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 340322004449 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 340322004450 FeS assembly protein SufB; Region: sufB; TIGR01980 340322004451 Predicted transcriptional regulator [Transcription]; Region: COG2345 340322004452 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 340322004453 putative DNA binding site [nucleotide binding]; other site 340322004454 putative Zn2+ binding site [ion binding]; other site 340322004455 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 340322004456 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322004457 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 340322004458 Walker A/P-loop; other site 340322004459 ATP binding site [chemical binding]; other site 340322004460 Q-loop/lid; other site 340322004461 ABC transporter signature motif; other site 340322004462 Walker B; other site 340322004463 D-loop; other site 340322004464 H-loop/switch region; other site 340322004465 ABC-2 type transporter; Region: ABC2_membrane; cl11417 340322004466 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 340322004467 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 340322004468 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322004469 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 340322004470 ATP binding site [chemical binding]; other site 340322004471 putative Mg++ binding site [ion binding]; other site 340322004472 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 340322004473 nucleotide binding region [chemical binding]; other site 340322004474 ATP-binding site [chemical binding]; other site 340322004475 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 340322004476 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 340322004477 NADP binding site [chemical binding]; other site 340322004478 dimer interface [polypeptide binding]; other site 340322004479 UbiA prenyltransferase family; Region: UbiA; cl00337 340322004480 transketolase; Reviewed; Region: PRK05899 340322004481 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 340322004482 TPP-binding site [chemical binding]; other site 340322004483 dimer interface [polypeptide binding]; other site 340322004484 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 340322004485 PYR/PP interface [polypeptide binding]; other site 340322004486 dimer interface [polypeptide binding]; other site 340322004487 TPP binding site [chemical binding]; other site 340322004488 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 340322004489 putative active site [active] 340322004490 transaldolase; Provisional; Region: PRK03903 340322004491 catalytic residue [active] 340322004492 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 340322004493 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 340322004494 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 340322004495 opcA protein; Region: OpcA; TIGR00534 340322004496 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 340322004497 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 340322004498 putative active site [active] 340322004499 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 340322004500 sarcosine oxidase, monomeric form; Region: soxA_mon; TIGR01377 340322004501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322004502 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 340322004503 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 340322004504 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 340322004505 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 340322004506 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 340322004507 substrate binding site [chemical binding]; other site 340322004508 dimer interface [polypeptide binding]; other site 340322004509 catalytic triad [active] 340322004510 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 340322004511 substrate binding site [chemical binding]; other site 340322004512 hinge regions; other site 340322004513 ADP binding site [chemical binding]; other site 340322004514 catalytic site [active] 340322004515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322004516 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 340322004517 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 340322004518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 340322004519 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 340322004520 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 340322004521 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 340322004522 phosphate binding site [ion binding]; other site 340322004523 putative substrate binding pocket [chemical binding]; other site 340322004524 dimer interface [polypeptide binding]; other site 340322004525 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 340322004526 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 340322004527 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 340322004528 UvrB/uvrC motif; Region: UVR; pfam02151 340322004529 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 340322004530 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 340322004531 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 340322004532 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 340322004533 homopentamer interface [polypeptide binding]; other site 340322004534 active site 340322004535 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 340322004536 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 340322004537 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 340322004538 dimerization interface [polypeptide binding]; other site 340322004539 active site 340322004540 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 340322004541 Lumazine binding domain; Region: Lum_binding; pfam00677 340322004542 Lumazine binding domain; Region: Lum_binding; pfam00677 340322004543 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 340322004544 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 340322004545 catalytic motif [active] 340322004546 Zn binding site [ion binding]; other site 340322004547 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 5,10-...; Region: DHFR; cl00161 340322004548 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 340322004549 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...; Region: RPE; cd00429 340322004550 substrate binding site [chemical binding]; other site 340322004551 hexamer interface [polypeptide binding]; other site 340322004552 metal binding site [ion binding]; metal-binding site 340322004553 16S rRNA methyltransferase B; Provisional; Region: PRK14902 340322004554 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 rRNA-...; Region: NusB_Sun; cl00223 340322004555 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; cl12011 340322004556 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 340322004557 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 340322004558 putative active site [active] 340322004559 substrate binding site [chemical binding]; other site 340322004560 putative cosubstrate binding site; other site 340322004561 catalytic site [active] 340322004562 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 340322004563 substrate binding site [chemical binding]; other site 340322004564 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(...; Region: Pep_deformylase; cd00487 340322004565 active site 340322004566 catalytic residues [active] 340322004567 metal binding site [ion binding]; metal-binding site 340322004568 primosome assembly protein PriA; Provisional; Region: PRK14873 340322004569 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 340322004570 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 340322004571 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 340322004572 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 340322004573 Flavoprotein; Region: Flavoprotein; cl08021 340322004574 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 340322004575 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 340322004576 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...; Region: GMPK; cd00071 340322004577 catalytic site [active] 340322004578 G-X2-G-X-G-K; other site 340322004579 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 contains two...; Region: OMP_decarboxylase_like; cd04725 340322004580 active site 340322004581 dimer interface [polypeptide binding]; other site 340322004582 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 340322004583 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322004584 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322004585 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 340322004586 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340322004587 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322004588 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 340322004589 IMP binding site; other site 340322004590 dimer interface [polypeptide binding]; other site 340322004591 interdomain contacts; other site 340322004592 partial ornithine binding site; other site 340322004593 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 340322004594 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 340322004595 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 340322004596 catalytic site [active] 340322004597 subunit interface [polypeptide binding]; other site 340322004598 dihydroorotase; Validated; Region: pyrC; PRK09357 340322004599 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...; Region: metallo-dependent_hydrolases; cl00281 340322004600 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 340322004601 active site 340322004602 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 340322004603 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340322004604 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 340322004605 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322004606 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 340322004607 hydrophobic ligand binding site; other site 340322004608 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 340322004609 TIGR01777 family protein; Region: yfcH 340322004610 putative NAD(P) binding site [chemical binding]; other site 340322004611 putative active site [active] 340322004612 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 rRNA-...; Region: NusB_Sun; cl00223 340322004613 putative RNA binding site [nucleotide binding]; other site 340322004614 elongation factor P; Validated; Region: PRK00529 340322004615 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 340322004616 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 340322004617 RNA binding site [nucleotide binding]; other site 340322004618 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 340322004619 RNA binding site [nucleotide binding]; other site 340322004620 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340322004621 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 340322004622 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 340322004623 active site 340322004624 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 340322004625 active site 340322004626 dimer interface [polypeptide binding]; other site 340322004627 metal binding site [ion binding]; metal-binding site 340322004628 shikimate kinase; Reviewed; Region: aroK; PRK00131 340322004629 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...; Region: SK; cd00464 340322004630 ADP binding site [chemical binding]; other site 340322004631 magnesium binding site [ion binding]; other site 340322004632 putative shikimate binding site; other site 340322004633 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 340322004634 Tetramer interface [polypeptide binding]; other site 340322004635 Active site [active] 340322004636 FMN-binding site [chemical binding]; other site 340322004637 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 340322004638 dimerization interface [polypeptide binding]; other site 340322004639 putative DNA binding site [nucleotide binding]; other site 340322004640 putative Zn2+ binding site [ion binding]; other site 340322004641 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322004642 ABC-ATPase subunit interface; other site 340322004643 dimer interface [polypeptide binding]; other site 340322004644 putative PBP binding regions; other site 340322004645 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322004646 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 340322004647 putative ligand binding residues [chemical binding]; other site 340322004648 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322004649 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322004650 Walker A/P-loop; other site 340322004651 ATP binding site [chemical binding]; other site 340322004652 Q-loop/lid; other site 340322004653 ABC transporter signature motif; other site 340322004654 Walker B; other site 340322004655 D-loop; other site 340322004656 H-loop/switch region; other site 340322004657 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 340322004658 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 340322004659 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 340322004660 shikimate binding site; other site 340322004661 NAD(P) binding site [chemical binding]; other site 340322004662 YceG-like family; Region: YceG; pfam02618 340322004663 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 340322004664 dimerization interface [polypeptide binding]; other site 340322004665 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 340322004666 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 340322004667 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 formation...; Region: AlaRS_core; cd00673 340322004668 motif 1; other site 340322004669 active site 340322004670 motif 2; other site 340322004671 motif 3; other site 340322004672 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 340322004673 recombination factor protein RarA; Reviewed; Region: PRK13342 340322004674 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...; Region: AAA; cd00009 340322004675 Walker A motif; other site 340322004676 ATP binding site [chemical binding]; other site 340322004677 Walker B motif; other site 340322004678 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 340322004679 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340322004680 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 340322004681 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 340322004682 dimer interface [polypeptide binding]; other site 340322004683 anticodon binding site; other site 340322004684 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 the...; Region: AspRS_core; cd00777 340322004685 homodimer interface [polypeptide binding]; other site 340322004686 motif 1; other site 340322004687 active site 340322004688 motif 2; other site 340322004689 GAD domain; Region: GAD; pfam02938 340322004690 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 340322004691 active site 340322004692 motif 3; other site 340322004693 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 340322004694 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 340322004695 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 340322004696 ATP binding site [chemical binding]; other site 340322004697 putative Mg++ binding site [ion binding]; other site 340322004698 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 340322004699 nucleotide binding region [chemical binding]; other site 340322004700 ATP-binding site [chemical binding]; other site 340322004701 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 340322004702 Predicted membrane protein [Function unknown]; Region: COG1511 340322004703 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 340322004704 ABC-2 type transporter; Region: ABC2_membrane; cl11417 340322004705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322004706 Q-loop/lid; other site 340322004707 ABC transporter signature motif; other site 340322004708 Walker B; other site 340322004709 D-loop; other site 340322004710 H-loop/switch region; other site 340322004711 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322004712 CE1758 family; Region: LLM_CE1758_fam; TIGR04036 340322004713 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322004714 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340322004715 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 340322004716 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 340322004717 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 340322004718 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 340322004719 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 340322004720 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 ATP-dependent...; Region: HisRS-like_core; cd00773 340322004721 dimer interface [polypeptide binding]; other site 340322004722 motif 1; other site 340322004723 active site 340322004724 motif 2; other site 340322004725 motif 3; other site 340322004726 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 340322004727 anticodon binding site; other site 340322004728 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322004729 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 340322004730 active site 340322004731 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 340322004732 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340322004733 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340322004734 synthetase active site [active] 340322004735 NTP binding site [chemical binding]; other site 340322004736 metal binding site [ion binding]; metal-binding site 340322004737 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...; Region: TGS_RelA_SpoT; cd01668 340322004738 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 340322004739 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322004740 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 340322004741 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 340322004742 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 340322004743 Protein export membrane protein; Region: SecD_SecF; cl14618 340322004744 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 340322004745 Protein export membrane protein; Region: SecD_SecF; cl14618 340322004746 Preprotein translocase subunit; Region: YajC; cl00806 340322004747 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 340322004748 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...; Region: AAA; cd00009 340322004749 Walker A motif; other site 340322004750 ATP binding site [chemical binding]; other site 340322004751 Walker B motif; other site 340322004752 arginine finger; other site 340322004753 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 340322004754 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 340322004755 RuvA N terminal domain; Region: RuvA_N; pfam01330 340322004756 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 340322004757 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 includes...; Region: RuvC_resolvase; cd00529 340322004758 active site 340322004759 putative DNA-binding cleft [nucleotide binding]; other site 340322004760 dimer interface [polypeptide binding]; other site 340322004761 Domain of unknown function DUF28; Region: DUF28; cl00361 340322004762 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 340322004763 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 340322004764 active site 340322004765 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 340322004766 catalytic triad [active] 340322004767 dimer interface [polypeptide binding]; other site 340322004768 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 340322004769 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322004770 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 340322004771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322004772 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 340322004773 putative acyl-acceptor binding pocket; other site 340322004774 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 340322004775 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 340322004776 nucleotide binding site/active site [active] 340322004777 HIT family signature motif; other site 340322004778 catalytic residue [active] 340322004779 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 340322004780 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 340322004781 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 340322004782 active site 340322004783 dimer interface [polypeptide binding]; other site 340322004784 motif 1; other site 340322004785 motif 2; other site 340322004786 motif 3; other site 340322004787 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 340322004788 anticodon binding site; other site 340322004789 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 340322004790 Copper resistance protein CopC; Region: CopC; cl01012 340322004791 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; cl09110 340322004792 Glycerate kinase family; Region: Gly_kinase; cl00841 340322004793 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 5,10-...; Region: DHFR; cl00161 340322004794 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 340322004795 SelR domain; Region: SelR; cl00369 340322004796 Chlorite dismutase; Region: Chlor_dismutase; cl01280 340322004797 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 340322004798 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 340322004799 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 340322004800 putative active site [active] 340322004801 catalytic site [active] 340322004802 putative substrate binding site [chemical binding]; other site 340322004803 HRDC domain; Region: HRDC; cl02578 340322004804 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 340322004805 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 340322004806 TPP-binding site; other site 340322004807 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 340322004808 PYR/PP interface [polypeptide binding]; other site 340322004809 dimer interface [polypeptide binding]; other site 340322004810 TPP binding site [chemical binding]; other site 340322004811 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 340322004812 TRAM domain; Region: TRAM; cl01282 340322004813 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 340322004814 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; cl12011 340322004815 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 340322004816 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 340322004817 trimer interface [polypeptide binding]; other site 340322004818 active site 340322004819 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 340322004820 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 340322004821 active site 340322004822 dimerization interface [polypeptide binding]; other site 340322004823 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340322004824 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340322004825 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 340322004826 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 340322004827 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322004828 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 340322004829 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...; Region: Sigma70_r4; cd06171 340322004830 DNA binding residues [nucleotide binding] 340322004831 Predicted membrane protein [Function unknown]; Region: COG2311 340322004832 Protein of unknown function (DUF418); Region: DUF418; cl12135 340322004833 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340322004834 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 340322004835 ATP binding site [chemical binding]; other site 340322004836 putative Mg++ binding site [ion binding]; other site 340322004837 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 340322004838 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 340322004839 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 340322004840 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 340322004841 S-adenosylmethionine binding site [chemical binding]; other site 340322004842 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...; Region: Dtyr_deacylase; cd00563 340322004843 putative active site [active] 340322004844 dimerization interface [polypeptide binding]; other site 340322004845 putative tRNAtyr binding site [nucleotide binding]; other site 340322004846 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 340322004847 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 340322004848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322004849 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 340322004850 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...; Region: Sigma70_r4; cd06171 340322004851 DNA binding residues [nucleotide binding] 340322004852 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322004853 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 340322004854 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322004855 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 340322004856 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 340322004857 NAD binding site [chemical binding]; other site 340322004858 homodimer interface [polypeptide binding]; other site 340322004859 active site 340322004860 substrate binding site [chemical binding]; other site 340322004861 PAC2 family; Region: PAC2; cl00847 340322004862 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340322004863 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 340322004864 ATP binding site [chemical binding]; other site 340322004865 putative Mg++ binding site [ion binding]; other site 340322004866 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 340322004867 nucleotide binding region [chemical binding]; other site 340322004868 ATP-binding site [chemical binding]; other site 340322004869 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 340322004870 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322004871 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 340322004872 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 340322004873 dimerization interface [polypeptide binding]; other site 340322004874 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 340322004875 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 340322004876 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 340322004877 ATP binding site [chemical binding]; other site 340322004878 putative Mg++ binding site [ion binding]; other site 340322004879 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; cl14882 340322004880 Helicase associated domain (HA2); Region: HA2; cl04503 340322004881 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 340322004882 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 340322004883 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 340322004884 ATP cone domain; Region: ATP-cone; pfam03477 340322004885 LexA repressor; Validated; Region: PRK00215 340322004886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322004887 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 (...; Region: S24_LexA-like; cd06529 340322004888 Catalytic site [active] 340322004889 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322004890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322004891 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 340322004892 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 340322004893 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, 2-...; Region: ribokinase_pfkB_like; cl00192 340322004894 substrate binding site [chemical binding]; other site 340322004895 ATP binding site [chemical binding]; other site 340322004896 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 340322004897 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 340322004898 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 340322004899 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; cl09155 340322004900 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340322004901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322004902 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 340322004903 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 340322004904 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 340322004905 putative substrate binding site [chemical binding]; other site 340322004906 putative ATP binding site [chemical binding]; other site 340322004907 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 340322004908 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 340322004909 active site 340322004910 phosphorylation site [posttranslational modification] 340322004911 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...; Region: PTS_IIB_fructose; cd05569 340322004912 P-loop; other site 340322004913 active site 340322004914 phosphorylation site [posttranslational modification] 340322004915 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 340322004916 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 340322004917 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 340322004918 Sulfate transporter family; Region: Sulfate_transp; cl00967 340322004919 Permease family; Region: Xan_ur_permease; pfam00860 340322004920 GTPases [General function prediction only]; Region: HflX; COG2262 340322004921 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 340322004922 G1 box; other site 340322004923 GTP/Mg2+ binding site [chemical binding]; other site 340322004924 Switch I region; other site 340322004925 G2 box; other site 340322004926 G3 box; other site 340322004927 Switch II region; other site 340322004928 G4 box; other site 340322004929 G5 box; other site 340322004930 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 340322004931 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 340322004932 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 340322004933 IPP transferase; Region: IPPT; cl00403 340322004934 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 340322004935 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 340322004936 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 340322004937 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 340322004938 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 340322004939 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 340322004940 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 340322004941 FeS/SAM binding site; other site 340322004942 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 340322004943 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 340322004944 Walker A/P-loop; other site 340322004945 ATP binding site [chemical binding]; other site 340322004946 Q-loop/lid; other site 340322004947 ABC transporter signature motif; other site 340322004948 Walker B; other site 340322004949 D-loop; other site 340322004950 H-loop/switch region; other site 340322004951 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 340322004952 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...; Region: PBPb; cd00134 340322004953 substrate binding pocket [chemical binding]; other site 340322004954 membrane-bound complex binding site; other site 340322004955 hinge residues; other site 340322004956 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 340322004957 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322004958 dimer interface [polypeptide binding]; other site 340322004959 conserved gate region; other site 340322004960 putative PBP binding loops; other site 340322004961 ABC-ATPase subunit interface; other site 340322004962 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 340322004963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322004964 dimer interface [polypeptide binding]; other site 340322004965 conserved gate region; other site 340322004966 putative PBP binding loops; other site 340322004967 ABC-ATPase subunit interface; other site 340322004968 RecX family; Region: RecX; cl00936 340322004969 recombinase A; Provisional; Region: recA; PRK09354 340322004970 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 340322004971 hexamer interface [polypeptide binding]; other site 340322004972 Walker A motif; other site 340322004973 ATP binding site [chemical binding]; other site 340322004974 Walker B motif; other site 340322004975 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 340322004976 BioY family; Region: BioY; cl00560 340322004977 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322004978 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 340322004979 Walker A/P-loop; other site 340322004980 ATP binding site [chemical binding]; other site 340322004981 Q-loop/lid; other site 340322004982 ABC transporter signature motif; other site 340322004983 Walker B; other site 340322004984 D-loop; other site 340322004985 H-loop/switch region; other site 340322004986 Cobalt transport protein; Region: CbiQ; cl00463 340322004987 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 340322004988 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 340322004989 non-specific DNA binding site [nucleotide binding]; other site 340322004990 salt bridge; other site 340322004991 sequence-specific DNA binding site [nucleotide binding]; other site 340322004992 Competence-damaged protein; Region: CinA; cl00666 340322004993 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 340322004994 YCII-related domain; Region: YCII; cl00999 340322004995 Integral membrane protein TerC family; Region: TerC; cl10468 340322004996 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 340322004997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322004998 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 340322004999 TIGR03085 family protein; Region: TIGR03085 340322005000 DinB superfamily; Region: DinB_2; cl00986 340322005001 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 340322005002 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322005003 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 340322005004 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 340322005005 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 340322005006 dimer interface [polypeptide binding]; other site 340322005007 active site 340322005008 catalytic residue [active] 340322005009 Thymidylate synthase complementing protein; Region: Thy1; cl03630 340322005010 dihydrodipicolinate reductase; Provisional; Region: PRK00048 340322005011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322005012 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 340322005013 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 340322005014 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 340322005015 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 340322005016 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 340322005017 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 340322005018 putative nucleic acid binding region [nucleotide binding]; other site 340322005019 G-X-X-G motif; other site 340322005020 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 340322005021 RNA binding site [nucleotide binding]; other site 340322005022 domain interface; other site 340322005023 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...; Region: Ribosomal_S15p_S13e; cd00353 340322005024 16S/18S rRNA binding site [nucleotide binding]; other site 340322005025 S13e-L30e interaction site [polypeptide binding]; other site 340322005026 25S rRNA binding site [nucleotide binding]; other site 340322005027 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...; Region: nuc_hydro_CaPnhB; cd02650 340322005028 active site 340322005029 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 340322005030 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 340322005031 active site 340322005032 Riboflavin kinase; Region: Flavokinase; pfam01687 340322005033 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 340322005034 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 340322005035 RNA binding site [nucleotide binding]; other site 340322005036 active site 340322005037 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 340322005038 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 340322005039 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322005040 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322005041 active site 340322005042 metal binding site [ion binding]; metal-binding site 340322005043 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322005044 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 340322005045 MatE; Region: MatE; pfam01554 340322005046 MatE; Region: MatE; pfam01554 340322005047 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 340322005048 DHH family; Region: DHH; pfam01368 340322005049 Ribosome-binding factor A; Region: RBFA; cl00542 340322005050 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340322005051 translation initiation factor IF-2; Region: IF-2; TIGR00487 340322005052 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340322005053 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 340322005054 G1 box; other site 340322005055 putative GEF interaction site [polypeptide binding]; other site 340322005056 GTP/Mg2+ binding site [chemical binding]; other site 340322005057 Switch I region; other site 340322005058 G2 box; other site 340322005059 G3 box; other site 340322005060 Switch II region; other site 340322005061 G4 box; other site 340322005062 G5 box; other site 340322005063 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...; Region: IF2_mtIF2_II; cd03702 340322005064 Translation-initiation factor 2; Region: IF-2; pfam11987 340322005065 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...; Region: mtIF2_IVc; cd03692 340322005066 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 340322005067 putative RNA binding cleft [nucleotide binding]; other site 340322005068 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 340322005069 NusA N-terminal domain; Region: NusA_N; pfam08529 340322005070 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...; Region: S1_NusA; cd04455 340322005071 RNA binding site [nucleotide binding]; other site 340322005072 homodimer interface [polypeptide binding]; other site 340322005073 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 340322005074 G-X-X-G motif; other site 340322005075 ribosome maturation protein RimP; Reviewed; Region: PRK00092 340322005076 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 340322005077 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 340322005078 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 340322005079 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 340322005080 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322005081 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322005082 dimer interface [polypeptide binding]; other site 340322005083 conserved gate region; other site 340322005084 ABC-ATPase subunit interface; other site 340322005085 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 340322005086 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322005087 dimer interface [polypeptide binding]; other site 340322005088 conserved gate region; other site 340322005089 putative PBP binding loops; other site 340322005090 ABC-ATPase subunit interface; other site 340322005091 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 340322005092 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322005093 Walker A/P-loop; other site 340322005094 ATP binding site [chemical binding]; other site 340322005095 Q-loop/lid; other site 340322005096 ABC transporter signature motif; other site 340322005097 Walker B; other site 340322005098 D-loop; other site 340322005099 H-loop/switch region; other site 340322005100 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322005101 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322005102 Walker A/P-loop; other site 340322005103 ATP binding site [chemical binding]; other site 340322005104 Q-loop/lid; other site 340322005105 ABC transporter signature motif; other site 340322005106 Walker B; other site 340322005107 D-loop; other site 340322005108 H-loop/switch region; other site 340322005109 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322005110 prolyl-tRNA synthetase; Provisional; Region: PRK09194 340322005111 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 formation...; Region: ProRS_core_prok; cd00779 340322005112 dimer interface [polypeptide binding]; other site 340322005113 motif 1; other site 340322005114 active site 340322005115 motif 2; other site 340322005116 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 single-...; Region: ProRS-INS; cd04334 340322005117 putative deacylase active site [active] 340322005118 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 340322005119 active site 340322005120 motif 3; other site 340322005121 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-...; Region: ProRS_anticodon_short; cd00861 340322005122 anticodon binding site; other site 340322005123 Protein of unknown function (DUF328); Region: DUF328; cl01143 340322005124 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 340322005125 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...; Region: vWA_Magnesium_chelatase; cd01451 340322005126 metal ion-dependent adhesion site (MIDAS); other site 340322005127 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 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...; Region: AAA; cd00009 340322005129 Walker A motif; other site 340322005130 ATP binding site [chemical binding]; other site 340322005131 Walker B motif; other site 340322005132 arginine finger; other site 340322005133 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 340322005134 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 340322005135 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 340322005136 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 340322005137 dimer interface [polypeptide binding]; other site 340322005138 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 340322005139 dimer interface [polypeptide binding]; other site 340322005140 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 340322005141 Predicted dehydrogenase [General function prediction only]; Region: COG0579 340322005142 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 340322005143 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; cl12031 340322005144 mycothione reductase; Region: mycothione_red; TIGR03452 340322005145 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322005146 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322005147 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 340322005148 methionine aminopeptidase; Reviewed; Region: PRK07281 340322005149 active site 340322005150 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 340322005151 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 340322005152 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322005153 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 340322005154 active site 340322005155 phosphorylation site [posttranslational modification] 340322005156 intermolecular recognition site; other site 340322005157 dimerization interface [polypeptide binding]; other site 340322005158 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...; Region: LuxR_C_like; cd06170 340322005159 DNA binding residues [nucleotide binding] 340322005160 dimerization interface [polypeptide binding]; other site 340322005161 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 340322005162 Histidine kinase; Region: HisKA_3; pfam07730 340322005163 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340322005164 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 340322005165 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322005166 Walker A/P-loop; other site 340322005167 ATP binding site [chemical binding]; other site 340322005168 Q-loop/lid; other site 340322005169 ABC transporter signature motif; other site 340322005170 Walker B; other site 340322005171 D-loop; other site 340322005172 H-loop/switch region; other site 340322005173 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 340322005174 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 340322005175 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 340322005176 active site 340322005177 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...; Region: PDZ_metalloprotease; cd00989 340322005178 protein binding site [polypeptide binding]; other site 340322005179 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 340322005180 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 340322005181 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 340322005182 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 340322005183 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 340322005184 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 340322005185 Walker A/P-loop; other site 340322005186 ATP binding site [chemical binding]; other site 340322005187 Q-loop/lid; other site 340322005188 ABC transporter signature motif; other site 340322005189 Walker B; other site 340322005190 D-loop; other site 340322005191 H-loop/switch region; other site 340322005192 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 340322005193 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 340322005194 FeS/SAM binding site; other site 340322005195 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 340322005196 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 340322005197 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 round of...; Region: RRF; cd00520 340322005198 hinge region; other site 340322005199 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 340322005200 putative nucleotide binding site [chemical binding]; other site 340322005201 uridine monophosphate binding site [chemical binding]; other site 340322005202 homohexameric interface [polypeptide binding]; other site 340322005203 elongation factor Ts; Provisional; Region: tsf; PRK09377 340322005204 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 340322005205 Elongation factor TS; Region: EF_TS; pfam00889 340322005206 Elongation factor TS; Region: EF_TS; pfam00889 340322005207 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 340322005208 rRNA interaction site [nucleotide binding]; other site 340322005209 S8 interaction site; other site 340322005210 putative laminin-1 binding site; other site 340322005211 Peptidase family M23; Region: Peptidase_M23; pfam01551 340322005212 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 340322005213 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 340322005214 DNA binding site [nucleotide binding] 340322005215 Int/Topo IB signature motif; other site 340322005216 active site 340322005217 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 340322005218 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 340322005219 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 340322005220 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 340322005221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322005222 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 340322005223 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 340322005224 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 340322005225 RNA/DNA hybrid binding site [nucleotide binding]; other site 340322005226 active site 340322005227 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 340322005228 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 340322005229 Catalytic site [active] 340322005230 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 340322005231 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...; Region: FhuD; cd01146 340322005232 siderophore binding site; other site 340322005233 CsbD-like; Region: CsbD; cl01272 340322005234 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 340322005235 helix-hairpin-helix signature motif; other site 340322005236 substrate binding pocket [chemical binding]; other site 340322005237 active site 340322005238 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 340322005239 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 340322005240 Phage-related protein [Function unknown]; Region: COG5412 340322005241 membrane protein P6; Region: PHA01399 340322005242 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 catalyze...; Region: LT_GEWL; cd00254 340322005243 N-acetyl-D-glucosamine binding site [chemical binding]; other site 340322005244 catalytic residue [active] 340322005245 Phage protein Gp19/Gp15/Gp42; Region: Phage_Gp19; pfam09355 340322005246 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 340322005247 oligomer interface [polypeptide binding]; other site 340322005248 active site residues [active] 340322005249 carboxyl-terminal processing protease; Provisional; Region: PLN00049 340322005250 Phage Terminase; Region: Terminase_1; pfam03354 340322005251 Phage terminase, small subunit; Region: Terminase_4; cl01525 340322005252 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 340322005253 putative active site [active] 340322005254 putative substrate binding site [chemical binding]; other site 340322005255 catalytic site [active] 340322005256 dimer interface [polypeptide binding]; other site 340322005257 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340322005258 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 340322005259 dimer interface [polypeptide binding]; other site 340322005260 ssDNA binding site [nucleotide binding]; other site 340322005261 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322005262 BRO family, N-terminal domain; Region: Bro-N; pfam02498 340322005263 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 340322005264 Domain of unknown function (DUF955); Region: DUF955; cl01076 340322005265 TM2 domain; Region: TM2; cl00984 340322005266 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 340322005267 Phage integrase family; Region: Phage_integrase; pfam00589 340322005268 Int/Topo IB signature motif; other site 340322005269 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 340322005270 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- (beta-...; Region: TMP_TenI; cd00564 340322005271 active site 340322005272 pyrophosphate binding site [ion binding]; other site 340322005273 thiamine phosphate binding site [chemical binding]; other site 340322005274 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 340322005275 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 340322005276 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 340322005277 thiS-thiF/thiG interaction site; other site 340322005278 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 340322005279 ThiS interaction site; other site 340322005280 putative active site [active] 340322005281 tetramer interface [polypeptide binding]; other site 340322005282 thiamine biosynthesis protein ThiF; Validated; Region: PRK05600 340322005283 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...; Region: ThiF_MoeB_HesA_family; cd00757 340322005284 ATP binding site [chemical binding]; other site 340322005285 substrate interface [chemical binding]; other site 340322005286 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 340322005287 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 340322005288 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 340322005289 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 340322005290 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 340322005291 RNA binding site [nucleotide binding]; other site 340322005292 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322005293 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322005294 DNA binding site [nucleotide binding] 340322005295 domain linker motif; other site 340322005296 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 340322005297 dimerization interface [polypeptide binding]; other site 340322005298 ligand binding site [chemical binding]; other site 340322005299 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 340322005300 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; cl09110 340322005301 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 340322005302 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 340322005303 tetramer interface [polypeptide binding]; other site 340322005304 active site 340322005305 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340322005306 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 340322005307 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 340322005308 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 340322005309 RimM N-terminal domain; Region: RimM; pfam01782 340322005310 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 340322005311 Cupin domain; Region: Cupin_2; cl09118 340322005312 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 340322005313 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 340322005314 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 340322005315 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 340322005316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322005317 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 340322005318 Walker A/P-loop; other site 340322005319 ATP binding site [chemical binding]; other site 340322005320 Q-loop/lid; other site 340322005321 ABC transporter signature motif; other site 340322005322 Walker B; other site 340322005323 D-loop; other site 340322005324 H-loop/switch region; other site 340322005325 signal recognition particle protein; Provisional; Region: PRK10867 340322005326 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 340322005327 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 340322005328 P loop; other site 340322005329 GTP binding site [chemical binding]; other site 340322005330 Signal peptide binding domain; Region: SRP_SPB; pfam02978 340322005331 PII uridylyl-transferase; Provisional; Region: glnD; PRK00227 340322005332 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322005333 metal binding triad; other site 340322005334 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 340322005335 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340322005336 Nitrogen regulatory protein P-II; Region: P-II; cl00412 340322005337 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 340322005338 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 340322005339 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 340322005340 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 340322005341 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340322005342 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 340322005343 Walker A/P-loop; other site 340322005344 ATP binding site [chemical binding]; other site 340322005345 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 340322005346 ABC transporter signature motif; other site 340322005347 Walker B; other site 340322005348 D-loop; other site 340322005349 H-loop/switch region; other site 340322005350 Acylphosphatase; Region: Acylphosphatase; cl00551 340322005351 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 340322005352 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 becoming...; Region: Lipase; cl14883 340322005353 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 340322005354 dimerization interface [polypeptide binding]; other site 340322005355 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 340322005356 MepB protein; Region: MepB; cl01985 340322005357 Cation efflux family; Region: Cation_efflux; cl00316 340322005358 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 340322005359 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 340322005360 DNA binding site [nucleotide binding] 340322005361 catalytic residue [active] 340322005362 H2TH interface [polypeptide binding]; other site 340322005363 putative catalytic residues [active] 340322005364 turnover-facilitating residue; other site 340322005365 intercalation triad [nucleotide binding]; other site 340322005366 8OG recognition residue [nucleotide binding]; other site 340322005367 putative reading head residues; other site 340322005368 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 340322005369 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 340322005370 ribonuclease III; Reviewed; Region: rnc; PRK00102 340322005371 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 post-...; Region: RIBOc; cd00593 340322005372 dimerization interface [polypeptide binding]; other site 340322005373 active site 340322005374 metal binding site [ion binding]; metal-binding site 340322005375 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...; Region: DSRM; cd00048 340322005376 dsRNA binding site [nucleotide binding]; other site 340322005377 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 340322005378 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 340322005379 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 340322005380 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 340322005381 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 340322005382 Walker A/P-loop; other site 340322005383 ATP binding site [chemical binding]; other site 340322005384 Q-loop/lid; other site 340322005385 ABC transporter signature motif; other site 340322005386 Walker B; other site 340322005387 D-loop; other site 340322005388 H-loop/switch region; other site 340322005389 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340322005390 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 340322005391 Walker A/P-loop; other site 340322005392 ATP binding site [chemical binding]; other site 340322005393 Q-loop/lid; other site 340322005394 ABC transporter signature motif; other site 340322005395 Walker B; other site 340322005396 D-loop; other site 340322005397 H-loop/switch region; other site 340322005398 glutamate dehydrogenase; Provisional; Region: PRK09414 340322005399 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 340322005400 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 340322005401 NAD(P) binding site [chemical binding]; other site 340322005402 Glycerate kinase family; Region: Gly_kinase; cl00841 340322005403 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 340322005404 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...; Region: HIT_like; cl00228 340322005405 nucleotide binding site/active site [active] 340322005406 HIT family signature motif; other site 340322005407 catalytic residue [active] 340322005408 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322005409 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 340322005410 metal binding site [ion binding]; metal-binding site 340322005411 putative dimer interface [polypeptide binding]; other site 340322005412 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 340322005413 putative homodimer interface [polypeptide binding]; other site 340322005414 putative active site pocket [active] 340322005415 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 340322005416 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 340322005417 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 340322005418 putative metal binding site [ion binding]; other site 340322005419 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 340322005420 active site 340322005421 metal binding site [ion binding]; metal-binding site 340322005422 pyruvate kinase; Provisional; Region: PRK06247 340322005423 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; cl09155 340322005424 domain interfaces; other site 340322005425 active site 340322005426 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 340322005427 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; cl09108 340322005428 phosphate binding site [ion binding]; other site 340322005429 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; cl09759 340322005430 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 340322005431 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 340322005432 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)-formimino-5-; Region: HisF; cd04731 340322005433 substrate binding site [chemical binding]; other site 340322005434 glutamase interaction surface [polypeptide binding]; other site 340322005435 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-1,6-; Region: IMPase_like; cd01637 340322005436 active site 340322005437 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 340322005438 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 340322005439 catalytic residues [active] 340322005440 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 340322005441 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 340322005442 putative active site [active] 340322005443 oxyanion strand; other site 340322005444 catalytic triad [active] 340322005445 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322005446 putative substrate translocation pore; other site 340322005447 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 340322005448 putative active site pocket [active] 340322005449 4-fold oligomerization interface [polypeptide binding]; other site 340322005450 metal binding residues [ion binding]; metal-binding site 340322005451 3-fold/trimer interface [polypeptide binding]; other site 340322005452 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 340322005453 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 340322005454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322005455 homodimer interface [polypeptide binding]; other site 340322005456 catalytic residue [active] 340322005457 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 340322005458 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 340322005459 NAD binding site [chemical binding]; other site 340322005460 dimerization interface [polypeptide binding]; other site 340322005461 product binding site; other site 340322005462 substrate binding site [chemical binding]; other site 340322005463 zinc binding site [ion binding]; other site 340322005464 catalytic residues [active] 340322005465 tetracycline repressor protein TetR; Provisional; Region: PRK13756 340322005466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322005467 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 340322005468 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 340322005469 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 340322005470 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 340322005471 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; cl12011 340322005472 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; cl12011 340322005473 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 340322005474 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322005475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322005476 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322005477 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322005478 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322005479 DNA binding site [nucleotide binding] 340322005480 domain linker motif; other site 340322005481 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 340322005482 dimerization interface [polypeptide binding]; other site 340322005483 ligand binding site [chemical binding]; other site 340322005484 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340322005485 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322005486 Walker A/P-loop; other site 340322005487 ATP binding site [chemical binding]; other site 340322005488 Q-loop/lid; other site 340322005489 ABC transporter signature motif; other site 340322005490 Walker B; other site 340322005491 D-loop; other site 340322005492 H-loop/switch region; other site 340322005493 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 340322005494 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322005495 ABC-ATPase subunit interface; other site 340322005496 dimer interface [polypeptide binding]; other site 340322005497 putative PBP binding regions; other site 340322005498 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322005499 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 340322005500 putative binding site residues; other site 340322005501 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322005502 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 340322005503 active site 340322005504 substrate binding site [chemical binding]; other site 340322005505 catalytic site [active] 340322005506 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 340322005507 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 340322005508 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 340322005509 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340322005510 synthetase active site [active] 340322005511 NTP binding site [chemical binding]; other site 340322005512 metal binding site [ion binding]; metal-binding site 340322005513 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322005514 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322005515 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 340322005516 RNA binding surface [nucleotide binding]; other site 340322005517 Uncharacterized conserved protein [Function unknown]; Region: COG1739 340322005518 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 340322005519 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 340322005520 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 340322005521 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 340322005522 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 340322005523 threonine dehydratase; Validated; Region: PRK08639 340322005524 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 340322005525 tetramer interface [polypeptide binding]; other site 340322005526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322005527 catalytic residue [active] 340322005528 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 340322005529 putative Ile/Val binding site [chemical binding]; other site 340322005530 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 340322005531 substrate binding site [chemical binding]; other site 340322005532 THF binding site; other site 340322005533 zinc-binding site [ion binding]; other site 340322005534 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 340322005535 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 340322005536 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 340322005537 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...; Region: DnaE_OBF; cd04485 340322005538 generic binding surface II; other site 340322005539 generic binding surface I; other site 340322005540 Predicted permeases [General function prediction only]; Region: RarD; COG2962 340322005541 EamA-like transporter family; Region: EamA; cl01037 340322005542 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 340322005543 Cation efflux family; Region: Cation_efflux; cl00316 340322005544 oxidoreductase; Provisional; Region: PRK06128 340322005545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322005546 NAD(P) binding site [chemical binding]; other site 340322005547 active site 340322005548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 340322005549 hypothetical protein; Provisional; Region: PRK09897 340322005550 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 340322005551 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA; Region: PLPDE_III_Y4yA_like; cd06842 340322005552 dimer interface [polypeptide binding]; other site 340322005553 active site 340322005554 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322005555 catalytic residues [active] 340322005556 substrate binding site [chemical binding]; other site 340322005557 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 340322005558 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 340322005559 dimer interface [polypeptide binding]; other site 340322005560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322005561 catalytic residue [active] 340322005562 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 340322005563 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 340322005564 active site 340322005565 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 340322005566 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340322005567 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322005568 Walker A/P-loop; other site 340322005569 ATP binding site [chemical binding]; other site 340322005570 Q-loop/lid; other site 340322005571 ABC transporter signature motif; other site 340322005572 Walker B; other site 340322005573 D-loop; other site 340322005574 H-loop/switch region; other site 340322005575 ABC transporter; Region: ABC_tran_2; pfam12848 340322005576 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 340322005577 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 340322005578 active site/substrate binding site [active] 340322005579 tetramer interface [polypeptide binding]; other site 340322005580 DNA polymerase IV; Provisional; Region: PRK03348 340322005581 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 340322005582 active site 340322005583 DNA binding site [nucleotide binding] 340322005584 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 340322005585 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 340322005586 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 340322005587 DNA binding residues [nucleotide binding] 340322005588 putative dimer interface [polypeptide binding]; other site 340322005589 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 340322005590 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 340322005591 HIGH motif; other site 340322005592 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 340322005593 active site 340322005594 KMSKS motif; other site 340322005595 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 340322005596 tRNA binding surface [nucleotide binding]; other site 340322005597 anticodon binding site; other site 340322005598 DivIVA domain; Region: DivI1A_domain; TIGR03544 340322005599 YGGT family; Region: YGGT; cl00508 340322005600 Protein of unknown function (DUF552); Region: DUF552; cl00775 340322005601 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 340322005602 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322005603 catalytic residue [active] 340322005604 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 340322005605 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 340322005606 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 340322005607 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...; Region: FtsZ_type1; cd02201 340322005608 nucleotide binding site [chemical binding]; other site 340322005609 SulA interaction site; other site 340322005610 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 340322005611 Cell division protein FtsQ; Region: FtsQ; pfam03799 340322005612 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 340322005613 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340322005614 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322005615 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322005616 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 340322005617 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...; Region: GT1_MurG; cd03785 340322005618 active site 340322005619 homodimer interface [polypeptide binding]; other site 340322005620 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 340322005621 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00141 340322005622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322005623 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322005624 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 340322005625 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 340322005626 Mg++ binding site [ion binding]; other site 340322005627 putative catalytic motif [active] 340322005628 putative substrate binding site [chemical binding]; other site 340322005629 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 340322005630 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340322005631 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322005632 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322005633 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 340322005634 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340322005635 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322005636 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340322005637 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 340322005638 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 340322005639 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 340322005640 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 340322005641 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; cl12011 340322005642 cell division protein MraZ; Reviewed; Region: PRK00326 340322005643 MraZ protein; Region: MraZ; pfam02381 340322005644 MraZ protein; Region: MraZ; pfam02381 340322005645 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 340322005646 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322005647 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 340322005648 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...; Region: MTHFR; cd00537 340322005649 FAD binding site [chemical binding]; other site 340322005650 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340322005651 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340322005652 substrate binding pocket [chemical binding]; other site 340322005653 chain length determination region; other site 340322005654 substrate-Mg2+ binding site; other site 340322005655 catalytic residues [active] 340322005656 aspartate-rich region 1; other site 340322005657 active site lid residues [active] 340322005658 aspartate-rich region 2; other site 340322005659 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 340322005660 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 340322005661 Catalytic domain of Protein Kinases; Region: PKc; cd00180 340322005662 active site 340322005663 ATP binding site [chemical binding]; other site 340322005664 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340322005665 substrate binding site [chemical binding]; other site 340322005666 activation loop (A-loop); other site 340322005667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 340322005668 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 340322005669 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 340322005670 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 340322005671 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 340322005672 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 340322005673 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 340322005674 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 340322005675 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 340322005676 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 340322005677 Predicted esterase [General function prediction only]; Region: COG0627 340322005678 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 340322005679 Acyltransferase family; Region: Acyl_transf_3; pfam01757 340322005680 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 340322005681 putative acyl-acceptor binding pocket; other site 340322005682 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 340322005683 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340322005684 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322005685 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 340322005686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 340322005687 NlpC/P60 family; Region: NLPC_P60; cl11438 340322005688 NlpC/P60 family; Region: NLPC_P60; cl11438 340322005689 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 340322005690 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 340322005691 heme bH binding site [chemical binding]; other site 340322005692 intrachain domain interface; other site 340322005693 heme bL binding site [chemical binding]; other site 340322005694 interchain domain interface [polypeptide binding]; other site 340322005695 Qo binding site; other site 340322005696 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 340322005697 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)...; Region: Rieske; cd03467 340322005698 iron-sulfur cluster [ion binding]; other site 340322005699 [2Fe-2S] cluster binding site [ion binding]; other site 340322005700 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 340322005701 Cytochrome c; Region: Cytochrom_C; cl11414 340322005702 Cytochrome c; Region: Cytochrom_C; cl11414 340322005703 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 340322005704 Subunit I/III interface [polypeptide binding]; other site 340322005705 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 340322005706 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 340322005707 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 340322005708 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 340322005709 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 340322005710 active site 340322005711 dimer interface [polypeptide binding]; other site 340322005712 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...; Region: Asn_Synthase_B_C; cd01991 340322005713 Ligand Binding Site [chemical binding]; other site 340322005714 Molecular Tunnel; other site 340322005715 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 340322005716 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 340322005717 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 340322005718 homotrimer interface [polypeptide binding]; other site 340322005719 Walker A motif; other site 340322005720 GTP binding site [chemical binding]; other site 340322005721 Walker B motif; other site 340322005722 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 340322005723 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 340322005724 putative dimer interface [polypeptide binding]; other site 340322005725 active site pocket [active] 340322005726 putative cataytic base [active] 340322005727 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 340322005728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322005729 NAD(P) binding site [chemical binding]; other site 340322005730 active site 340322005731 Branched-chain amino acid aminotransferase; Region: DUF3665; pfam12427 340322005732 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 340322005733 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 alpha-...; Region: BCAT_beta_family; cd01557 340322005734 homodimer interface [polypeptide binding]; other site 340322005735 substrate-cofactor binding pocket; other site 340322005736 catalytic residue [active] 340322005737 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...; Region: Peptidase_M17; cd00433 340322005738 multifunctional aminopeptidase A; Provisional; Region: PRK00913 340322005739 interface (dimer of trimers) [polypeptide binding]; other site 340322005740 Substrate-binding/catalytic site; other site 340322005741 Zn-binding sites [ion binding]; other site 340322005742 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 340322005743 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 340322005744 E3 interaction surface; other site 340322005745 lipoyl attachment site [posttranslational modification]; other site 340322005746 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 340322005747 E3 interaction surface; other site 340322005748 lipoyl attachment site [posttranslational modification]; other site 340322005749 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 340322005750 E3 interaction surface; other site 340322005751 lipoyl attachment site [posttranslational modification]; other site 340322005752 e3 binding domain; Region: E3_binding; pfam02817 340322005753 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 340322005754 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340322005755 lipoyl synthase; Provisional; Region: PRK05481 340322005756 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 340322005757 FeS/SAM binding site; other site 340322005758 Predicted permease [General function prediction only]; Region: COG2985 340322005759 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 340322005760 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; cl09110 340322005761 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 340322005762 RDD family; Region: RDD; cl00746 340322005763 glutamine synthetase, type I; Region: GlnA; TIGR00653 340322005764 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 340322005765 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 340322005766 Cupin domain; Region: Cupin_2; cl09118 340322005767 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 340322005768 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322005769 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 340322005770 homotrimer interaction site [polypeptide binding]; other site 340322005771 putative active site [active] 340322005772 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 340322005773 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 340322005774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322005775 catalytic residue [active] 340322005776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322005777 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322005778 putative substrate translocation pore; other site 340322005779 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322005780 D-galactonate transporter; Region: 2A0114; TIGR00893 340322005781 putative substrate translocation pore; other site 340322005782 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 340322005783 heme binding pocket [chemical binding]; other site 340322005784 heme ligand [chemical binding]; other site 340322005785 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 340322005786 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322005787 metal binding triad; other site 340322005788 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 340322005789 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 340322005790 metal binding triad; other site 340322005791 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 340322005792 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 340322005793 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 340322005794 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 340322005795 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 340322005796 putative active site; other site 340322005797 putative metal binding residues [ion binding]; other site 340322005798 signature motif; other site 340322005799 putative triphosphate binding site [ion binding]; other site 340322005800 CHAD domain; Region: CHAD; cl10506 340322005801 CHAD domain; Region: CHAD; cl10506 340322005802 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 340322005803 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 340322005804 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 340322005805 RNB domain; Region: RNB; pfam00773 340322005806 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 340322005807 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 340322005808 RNA/DNA hybrid binding site [nucleotide binding]; other site 340322005809 active site 340322005810 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 340322005811 catalytic core [active] 340322005812 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 340322005813 Putative zinc ribbon domain; Region: DUF164; pfam02591 340322005814 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 340322005815 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 340322005816 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 340322005817 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 340322005818 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; cl11391 340322005819 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 340322005820 motif II; other site 340322005821 Low molecular weight phosphatase family; Region: LMWPc; cd00115 340322005822 Active site [active] 340322005823 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 340322005824 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 340322005825 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 340322005826 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 340322005827 dimer interface [polypeptide binding]; other site 340322005828 TPP-binding site [chemical binding]; other site 340322005829 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 340322005830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322005831 Walker A/P-loop; other site 340322005832 ATP binding site [chemical binding]; other site 340322005833 Q-loop/lid; other site 340322005834 ABC transporter signature motif; other site 340322005835 Walker B; other site 340322005836 D-loop; other site 340322005837 H-loop/switch region; other site 340322005838 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 340322005839 TM-ABC transporter signature motif; other site 340322005840 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 340322005841 zinc binding site [ion binding]; other site 340322005842 putative ligand binding site [chemical binding]; other site 340322005843 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322005844 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322005845 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 340322005846 Phosphopantetheine attachment site; Region: PP-binding; cl09936 340322005847 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 340322005848 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 340322005849 active site 340322005850 motif I; other site 340322005851 motif II; other site 340322005852 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 340322005853 Uncharacterized conserved protein (DUF2183); Region: DUF2183; cl02012 340322005854 Beta-lactamase; Region: Beta-lactamase; cl01009 340322005855 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 340322005856 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 340322005857 putative active site [active] 340322005858 putative metal binding site [ion binding]; other site 340322005859 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322005860 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 340322005861 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 340322005862 DNA primase; Validated; Region: dnaG; PRK05667 340322005863 CHC2 zinc finger; Region: zf-CHC2; cl02597 340322005864 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 340322005865 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 340322005866 active site 340322005867 metal binding site [ion binding]; metal-binding site 340322005868 interdomain interaction site; other site 340322005869 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 340322005870 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 340322005871 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...; Region: RNase_Sa; cd00607 340322005872 active site 340322005873 barstar interaction site; other site 340322005874 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 340322005875 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...; Region: GFAT; cd00714 340322005876 glutaminase active site [active] 340322005877 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 340322005878 dimer interface [polypeptide binding]; other site 340322005879 active site 340322005880 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 340322005881 dimer interface [polypeptide binding]; other site 340322005882 active site 340322005883 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340322005884 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 340322005885 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 340322005886 putative active site [active] 340322005887 Domain of unknown function (DUF477); Region: DUF477; cl01535 340322005888 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340322005889 glycyl-tRNA synthetase; Provisional; Region: PRK04173 340322005890 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 340322005891 motif 1; other site 340322005892 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...; Region: GlyRS-like_core; cd00774 340322005893 active site 340322005894 motif 2; other site 340322005895 motif 3; other site 340322005896 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 340322005897 anticodon binding site; other site 340322005898 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 340322005899 dimerization interface [polypeptide binding]; other site 340322005900 putative DNA binding site [nucleotide binding]; other site 340322005901 putative Zn2+ binding site [ion binding]; other site 340322005902 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 340322005903 metal binding site 2 [ion binding]; metal-binding site 340322005904 putative DNA binding helix; other site 340322005905 metal binding site 1 [ion binding]; metal-binding site 340322005906 dimer interface [polypeptide binding]; other site 340322005907 structural Zn2+ binding site [ion binding]; other site 340322005908 Domain of unknown function DUF222; Region: DUF222; pfam02720 340322005909 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...; Region: HNHc; cd00085 340322005910 active site 340322005911 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 340322005912 diiron binding motif [ion binding]; other site 340322005913 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 340322005914 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 340322005915 catalytic residue [active] 340322005916 putative FPP diphosphate binding site; other site 340322005917 putative FPP binding hydrophobic cleft; other site 340322005918 dimer interface [polypeptide binding]; other site 340322005919 putative IPP diphosphate binding site; other site 340322005920 Recombination protein O N terminal; Region: RecO_N; pfam11967 340322005921 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 340322005922 Recombination protein O C terminal; Region: RecO_C; pfam02565 340322005923 GTPase Era; Reviewed; Region: era; PRK00089 340322005924 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 340322005925 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 340322005926 G1 box; other site 340322005927 GTP/Mg2+ binding site [chemical binding]; other site 340322005928 Switch I region; other site 340322005929 G2 box; other site 340322005930 Switch II region; other site 340322005931 G3 box; other site 340322005932 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340322005933 Domain of unknown function DUF21; Region: DUF21; pfam01595 340322005934 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 340322005935 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 340322005936 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 340322005937 PhoH-like protein; Region: PhoH; cl12134 340322005938 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 340322005939 chaperone protein DnaJ; Provisional; Region: PRK14278 340322005940 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...; Region: DnaJ; cd06257 340322005941 HSP70 interaction site [polypeptide binding]; other site 340322005942 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 340322005943 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 340322005944 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 340322005945 HrcA protein C terminal domain; Region: HrcA; pfam01628 340322005946 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 340322005947 FeS/SAM binding site; other site 340322005948 HemN C-terminal region; Region: HemN_C; pfam06969 340322005949 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 340322005950 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322005951 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 340322005952 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 340322005953 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340322005954 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 340322005955 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 340322005956 Walker A/P-loop; other site 340322005957 ATP binding site [chemical binding]; other site 340322005958 Q-loop/lid; other site 340322005959 ABC transporter signature motif; other site 340322005960 Walker B; other site 340322005961 D-loop; other site 340322005962 H-loop/switch region; other site 340322005963 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 340322005964 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 340322005965 active site 340322005966 Zn binding site [ion binding]; other site 340322005967 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 340322005968 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; cl12031 340322005969 substrate binding pocket [chemical binding]; other site 340322005970 catalytic triad [active] 340322005971 trehalose synthase; Region: treS_nterm; TIGR02456 340322005972 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 340322005973 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 340322005974 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 340322005975 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...; Region: IPP_Isomerase; cd02885 340322005976 active site 340322005977 metal binding site [ion binding]; metal-binding site 340322005978 nudix motif; other site 340322005979 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 340322005980 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 340322005981 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 340322005982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322005983 homodimer interface [polypeptide binding]; other site 340322005984 catalytic residue [active] 340322005985 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 340322005986 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322005987 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322005988 BCCT family transporter; Region: BCCT; cl00569 340322005989 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 340322005990 catalytic Zn binding site [ion binding]; other site 340322005991 putative phosphonate catabolism associated alcohol dehydrogenase; Region: HpnZ_proposed; TIGR03366 340322005992 structural Zn binding site [ion binding]; other site 340322005993 tetramer interface [polypeptide binding]; other site 340322005994 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 340322005995 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 340322005996 motif II; other site 340322005997 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322005998 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 340322005999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 340322006000 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 340322006001 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 340322006002 Q-loop/lid; other site 340322006003 ABC transporter signature motif; other site 340322006004 Walker B; other site 340322006005 D-loop; other site 340322006006 H-loop/switch region; other site 340322006007 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 340322006008 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 340322006009 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 340322006010 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 340322006011 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 340322006012 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322006013 DNA-binding site [nucleotide binding]; DNA binding site 340322006014 UTRA domain; Region: UTRA; cl06649 340322006015 Membrane transport protein; Region: Mem_trans; cl09117 340322006016 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340322006017 FAD binding domain; Region: FAD_binding_4; pfam01565 340322006018 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 340322006019 Transcriptional regulators [Transcription]; Region: GntR; COG1802 340322006020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322006021 DNA-binding site [nucleotide binding]; DNA binding site 340322006022 FCD domain; Region: FCD; cl11656 340322006023 DctM-like transporters; Region: DctM; pfam06808 340322006024 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; cl09110 340322006025 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 340322006026 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 340322006027 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322006028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 340322006029 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 340322006030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322006031 dimer interface [polypeptide binding]; other site 340322006032 conserved gate region; other site 340322006033 putative PBP binding loops; other site 340322006034 ABC-ATPase subunit interface; other site 340322006035 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 340322006036 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322006037 Walker A/P-loop; other site 340322006038 ATP binding site [chemical binding]; other site 340322006039 Q-loop/lid; other site 340322006040 ABC transporter signature motif; other site 340322006041 Walker B; other site 340322006042 D-loop; other site 340322006043 H-loop/switch region; other site 340322006044 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322006045 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322006046 Walker A/P-loop; other site 340322006047 ATP binding site [chemical binding]; other site 340322006048 Q-loop/lid; other site 340322006049 ABC transporter signature motif; other site 340322006050 Walker B; other site 340322006051 D-loop; other site 340322006052 H-loop/switch region; other site 340322006053 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 340322006054 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 340322006055 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...; Region: ribokinase; cd01174 340322006056 substrate binding site [chemical binding]; other site 340322006057 dimer interface [polypeptide binding]; other site 340322006058 ATP binding site [chemical binding]; other site 340322006059 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 340322006060 Membrane transport protein; Region: Mem_trans; cl09117 340322006061 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 340322006062 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 340322006063 active site 340322006064 phosphate binding residues; other site 340322006065 catalytic residues [active] 340322006066 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; cl09155 340322006067 active site 340322006068 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 340322006069 tetramer interface [polypeptide binding]; other site 340322006070 active site 340322006071 Mg2+/Mn2+ binding site [ion binding]; other site 340322006072 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 340322006073 putative active site [active] 340322006074 putative metal binding site [ion binding]; other site 340322006075 BCCT family transporter; Region: BCCT; cl00569 340322006076 Intermediate filament tail domain; Region: IF_tail; pfam00932 340322006077 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; cl09110 340322006078 DctM-like transporters; Region: DctM; pfam06808 340322006079 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 340322006080 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 340322006081 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 340322006082 PemK-like protein; Region: PemK; cl00995 340322006083 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 340322006084 LysE type translocator; Region: LysE; cl00565 340322006085 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 340322006086 hypothetical protein; Validated; Region: PRK05629 340322006087 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 340322006088 Competence protein; Region: Competence; cl00471 340322006089 SLBB domain; Region: SLBB; pfam10531 340322006090 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 340322006091 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 340322006092 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 340322006093 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 340322006094 catalytic core [active] 340322006095 Domain of unknown function DUF143; Region: DUF143; cl00519 340322006096 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 340322006097 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 340322006098 active site 340322006099 (T/H)XGH motif; other site 340322006100 Cutinase; Region: Cutinase; pfam01083 340322006101 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 340322006102 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 340322006103 putative catalytic cysteine [active] 340322006104 glycerate dehydrogenase; Provisional; Region: PRK06932 340322006105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006106 glutamate 5-kinase; Region: proB; TIGR01027 340322006107 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 340322006108 nucleotide binding site [chemical binding]; other site 340322006109 homotetrameric interface [polypeptide binding]; other site 340322006110 putative phosphate binding site [ion binding]; other site 340322006111 putative allosteric binding site; other site 340322006112 PUA domain; Region: PUA; cl00607 340322006113 GTPase CgtA; Reviewed; Region: obgE; PRK12296 340322006114 GTP1/OBG; Region: GTP1_OBG; pfam01018 340322006115 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 340322006116 G1 box; other site 340322006117 GTP/Mg2+ binding site [chemical binding]; other site 340322006118 Switch I region; other site 340322006119 G2 box; other site 340322006120 G3 box; other site 340322006121 Switch II region; other site 340322006122 G4 box; other site 340322006123 G5 box; other site 340322006124 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 340322006125 Permease family; Region: Xan_ur_permease; pfam00860 340322006126 Sulfate transporter family; Region: Sulfate_transp; cl00967 340322006127 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 340322006128 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...; Region: Aldo_ket_red; cd06660 340322006129 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340322006130 active site 340322006131 catalytic tetrad [active] 340322006132 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 340322006133 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 340322006134 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340322006135 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 340322006136 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 340322006137 homodimer interface [polypeptide binding]; other site 340322006138 oligonucleotide binding site [chemical binding]; other site 340322006139 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 340322006140 Pirin-related protein [General function prediction only]; Region: COG1741 340322006141 Cupin domain; Region: Cupin_2; cl09118 340322006142 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 340322006143 Uncharacterized conserved protein [Function unknown]; Region: COG2128 340322006144 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 340322006145 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 340322006146 active site 340322006147 multimer interface [polypeptide binding]; other site 340322006148 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322006149 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 340322006150 hydrophobic ligand binding site; other site 340322006151 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 340322006152 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340322006153 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 340322006154 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322006155 active site 340322006156 HIGH motif; other site 340322006157 nucleotide binding site [chemical binding]; other site 340322006158 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 340322006159 active site 340322006160 KMSKS motif; other site 340322006161 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 340322006162 tRNA binding surface [nucleotide binding]; other site 340322006163 anticodon binding site; other site 340322006164 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 340322006165 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 340322006166 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 340322006167 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 340322006168 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 340322006169 malate dehydrogenase; Provisional; Region: PRK05442 340322006170 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 340322006171 NAD(P) binding site [chemical binding]; other site 340322006172 dimer interface [polypeptide binding]; other site 340322006173 malate binding site [chemical binding]; other site 340322006174 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322006175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322006176 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 340322006177 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 340322006178 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 340322006179 alpha subunit interface [polypeptide binding]; other site 340322006180 active site 340322006181 substrate binding site [chemical binding]; other site 340322006182 Fe binding site [ion binding]; other site 340322006183 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 340322006184 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-...; Region: PDR_like; cd06185 340322006185 FMN-binding pocket [chemical binding]; other site 340322006186 flavin binding motif; other site 340322006187 phosphate binding motif [ion binding]; other site 340322006188 beta-alpha-beta structure motif; other site 340322006189 NAD binding pocket [chemical binding]; other site 340322006190 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 340322006191 catalytic loop [active] 340322006192 iron binding site [ion binding]; other site 340322006193 benzoate transport; Region: 2A0115; TIGR00895 340322006194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006195 putative substrate translocation pore; other site 340322006196 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006197 Membrane transport protein; Region: Mem_trans; cl09117 340322006198 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 340322006199 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 340322006200 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322006201 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...; Region: AAA; cd00009 340322006202 Walker A motif; other site 340322006203 ATP binding site [chemical binding]; other site 340322006204 Walker B motif; other site 340322006205 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 340322006206 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 340322006207 active site 340322006208 catalytic triad [active] 340322006209 oxyanion hole [active] 340322006210 Coenzyme A transferase; Region: CoA_trans; cl00773 340322006211 Coenzyme A transferase; Region: CoA_trans; cl00773 340322006212 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 340322006213 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322006214 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322006215 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 340322006216 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 340322006217 dimer interface [polypeptide binding]; other site 340322006218 active site 340322006219 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 340322006220 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 340322006221 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 340322006222 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...; Region: LuxR_C_like; cd06170 340322006223 DNA binding residues [nucleotide binding] 340322006224 dimerization interface [polypeptide binding]; other site 340322006225 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 340322006226 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 340322006227 tetramer interface [polypeptide binding]; other site 340322006228 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 340322006229 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; cl01383 340322006230 Active site [active] 340322006231 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 340322006232 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; cl01383 340322006233 Active site [active] 340322006234 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...; Region: HNHc; cd00085 340322006235 active site 340322006236 Muconolactone delta-isomerase; Region: MIase; cl01992 340322006237 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; cl14814 340322006238 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 340322006239 metal binding site [ion binding]; metal-binding site 340322006240 substrate binding pocket [chemical binding]; other site 340322006241 Actinobacterial; Region: catachol_actin; TIGR02438 340322006242 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; cl01383 340322006243 Active site [active] 340322006244 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 340322006245 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)...; Region: Rieske; cl00938 340322006246 iron-sulfur cluster [ion binding]; other site 340322006247 [2Fe-2S] cluster binding site [ion binding]; other site 340322006248 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 340322006249 putative alpha subunit interface [polypeptide binding]; other site 340322006250 putative active site [active] 340322006251 putative substrate binding site [chemical binding]; other site 340322006252 Fe binding site [ion binding]; other site 340322006253 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 340322006254 inter-subunit interface; other site 340322006255 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 340322006256 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 340322006257 catalytic loop [active] 340322006258 iron binding site [ion binding]; other site 340322006259 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 340322006260 FAD binding pocket [chemical binding]; other site 340322006261 FAD binding motif [chemical binding]; other site 340322006262 phosphate binding motif [ion binding]; other site 340322006263 beta-alpha-beta structure motif; other site 340322006264 NAD binding pocket [chemical binding]; other site 340322006265 FCD domain; Region: FCD; cl11656 340322006266 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 340322006267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006268 NAD(P) binding site [chemical binding]; other site 340322006269 active site 340322006270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322006271 Predicted ATPase [General function prediction only]; Region: COG3899 340322006272 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...; Region: LuxR_C_like; cd06170 340322006273 DNA binding residues [nucleotide binding] 340322006274 dimerization interface [polypeptide binding]; other site 340322006275 benzoate transport; Region: 2A0115; TIGR00895 340322006276 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006277 putative substrate translocation pore; other site 340322006278 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006279 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 340322006280 Sulfate transporter family; Region: Sulfate_transp; cl00967 340322006281 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 340322006282 sensory histidine kinase AtoS; Provisional; Region: PRK11360 340322006283 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 340322006284 ATP binding site [chemical binding]; other site 340322006285 Mg2+ binding site [ion binding]; other site 340322006286 G-X-G motif; other site 340322006287 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 340322006288 active site 340322006289 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)...; Region: Rieske; cl00938 340322006290 iron-sulfur cluster [ion binding]; other site 340322006291 [2Fe-2S] cluster binding site [ion binding]; other site 340322006292 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 340322006293 putative alpha subunit interface [polypeptide binding]; other site 340322006294 putative active site [active] 340322006295 putative substrate binding site [chemical binding]; other site 340322006296 Fe binding site [ion binding]; other site 340322006297 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 340322006298 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322006299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006300 NAD(P) binding site [chemical binding]; other site 340322006301 active site 340322006302 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 340322006303 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-...; Region: PDR_like; cd06185 340322006304 FMN-binding pocket [chemical binding]; other site 340322006305 flavin binding motif; other site 340322006306 phosphate binding motif [ion binding]; other site 340322006307 beta-alpha-beta structure motif; other site 340322006308 NAD binding pocket [chemical binding]; other site 340322006309 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 340322006310 catalytic loop [active] 340322006311 iron binding site [ion binding]; other site 340322006312 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 340322006313 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 340322006314 active site 340322006315 phosphorylation site [posttranslational modification] 340322006316 intermolecular recognition site; other site 340322006317 dimerization interface [polypeptide binding]; other site 340322006318 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...; Region: LuxR_C_like; cd06170 340322006319 DNA binding residues [nucleotide binding] 340322006320 dimerization interface [polypeptide binding]; other site 340322006321 D-galactonate transporter; Region: 2A0114; TIGR00893 340322006322 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006323 putative substrate translocation pore; other site 340322006324 Flavin Reductases; Region: FlaRed; cl00801 340322006325 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 340322006326 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 340322006327 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 340322006328 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; cl09110 340322006329 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 340322006330 oligomer interface [polypeptide binding]; other site 340322006331 active site residues [active] 340322006332 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 340322006333 oligomer interface [polypeptide binding]; other site 340322006334 active site residues [active] 340322006335 trigger factor; Provisional; Region: tig; PRK01490 340322006336 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 340322006337 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 340322006338 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 340322006339 dimerization interface [polypeptide binding]; other site 340322006340 putative DNA binding site [nucleotide binding]; other site 340322006341 putative Zn2+ binding site [ion binding]; other site 340322006342 Beta-lactamase; Region: Beta-lactamase; cl01009 340322006343 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 340322006344 MULE transposase domain; Region: MULE; pfam10551 340322006345 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 340322006346 Protein of unknown function (DUF418); Region: DUF418; cl12135 340322006347 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 340322006348 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 340322006349 catalytic residues [active] 340322006350 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 340322006351 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 340322006352 Zn binding site [ion binding]; other site 340322006353 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 340322006354 putative transposase OrfB; Reviewed; Region: PHA02517 340322006355 Integrase core domain; Region: rve; cl01316 340322006356 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322006357 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322006358 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006359 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322006360 putative substrate translocation pore; other site 340322006361 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322006362 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322006363 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322006364 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 340322006365 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 340322006366 catalytic Zn binding site [ion binding]; other site 340322006367 NAD binding site [chemical binding]; other site 340322006368 structural Zn binding site [ion binding]; other site 340322006369 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 340322006370 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322006371 NAD(P) binding site [chemical binding]; other site 340322006372 catalytic residues [active] 340322006373 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 1, classical (c) SDR; Region: BKR_1_SDR_c; cd05337 340322006374 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322006375 putative NAD(P) binding site [chemical binding]; other site 340322006376 active site 340322006377 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 340322006378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006379 NAD(P) binding site [chemical binding]; other site 340322006380 active site 340322006381 Putative cyclase; Region: Cyclase; cl00814 340322006382 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322006383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006384 putative substrate translocation pore; other site 340322006385 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 340322006386 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 340322006387 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 340322006388 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 340322006389 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322006390 Walker A/P-loop; other site 340322006391 ATP binding site [chemical binding]; other site 340322006392 Q-loop/lid; other site 340322006393 ABC transporter signature motif; other site 340322006394 Walker B; other site 340322006395 D-loop; other site 340322006396 H-loop/switch region; other site 340322006397 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322006398 Walker A/P-loop; other site 340322006399 ATP binding site [chemical binding]; other site 340322006400 Q-loop/lid; other site 340322006401 ABC transporter signature motif; other site 340322006402 Walker B; other site 340322006403 D-loop; other site 340322006404 H-loop/switch region; other site 340322006405 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322006406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322006407 putative PBP binding loops; other site 340322006408 dimer interface [polypeptide binding]; other site 340322006409 ABC-ATPase subunit interface; other site 340322006410 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322006411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322006412 dimer interface [polypeptide binding]; other site 340322006413 conserved gate region; other site 340322006414 putative PBP binding loops; other site 340322006415 ABC-ATPase subunit interface; other site 340322006416 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 340322006417 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 340322006418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 340322006419 hypothetical protein; Provisional; Region: PRK06062 340322006420 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 340322006421 inhibitor-cofactor binding pocket; inhibition site 340322006422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006423 catalytic residue [active] 340322006424 Domain of unknown function DUF222; Region: DUF222; pfam02720 340322006425 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...; Region: HNHc; cd00085 340322006426 active site 340322006427 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340322006428 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 340322006429 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 340322006430 HetN oxidoreductase-like, classical (c) SDR; Region: HetN_like_SDR_c; cd08932 340322006431 putative NAD(P) binding site [chemical binding]; other site 340322006432 active site 340322006433 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322006434 cystathionine gamma-synthase; Provisional; Region: PRK07811 340322006435 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 340322006436 homodimer interface [polypeptide binding]; other site 340322006437 substrate-cofactor binding pocket; other site 340322006438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006439 catalytic residue [active] 340322006440 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 340322006441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322006442 Walker A/P-loop; other site 340322006443 ATP binding site [chemical binding]; other site 340322006444 Q-loop/lid; other site 340322006445 ABC transporter signature motif; other site 340322006446 Walker B; other site 340322006447 D-loop; other site 340322006448 H-loop/switch region; other site 340322006449 Mechanosensitive ion channel; Region: MS_channel; pfam00924 340322006450 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...; Region: Trunc_globin; cd00454 340322006451 apolar tunnel; other site 340322006452 heme binding site [chemical binding]; other site 340322006453 dimerization interface [polypeptide binding]; other site 340322006454 Chromate transporter; Region: Chromate_transp; pfam02417 340322006455 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 340322006456 Chromate transporter; Region: Chromate_transp; pfam02417 340322006457 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...; Region: 4HBT; cd00586 340322006458 active site 340322006459 Sulfatase; Region: Sulfatase; cl10460 340322006460 Sulfatase; Region: Sulfatase; cl10460 340322006461 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 340322006462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322006463 Walker A/P-loop; other site 340322006464 ATP binding site [chemical binding]; other site 340322006465 Q-loop/lid; other site 340322006466 ABC transporter signature motif; other site 340322006467 Walker B; other site 340322006468 D-loop; other site 340322006469 H-loop/switch region; other site 340322006470 ABC transporter; Region: ABC_tran_2; pfam12848 340322006471 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 340322006472 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 340322006473 dimer interface [polypeptide binding]; other site 340322006474 ssDNA binding site [nucleotide binding]; other site 340322006475 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322006476 Copper resistance protein D; Region: CopD; cl00563 340322006477 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 340322006478 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; cl12039 340322006479 active site 340322006480 dimer interface [polypeptide binding]; other site 340322006481 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 340322006482 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322006483 dimer interface [polypeptide binding]; other site 340322006484 conserved gate region; other site 340322006485 putative PBP binding loops; other site 340322006486 ABC-ATPase subunit interface; other site 340322006487 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322006488 dimer interface [polypeptide binding]; other site 340322006489 conserved gate region; other site 340322006490 putative PBP binding loops; other site 340322006491 ABC-ATPase subunit interface; other site 340322006492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 340322006493 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 340322006494 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 340322006495 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340322006496 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340322006497 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 340322006498 Walker A/P-loop; other site 340322006499 ATP binding site [chemical binding]; other site 340322006500 Q-loop/lid; other site 340322006501 ABC transporter signature motif; other site 340322006502 Walker B; other site 340322006503 D-loop; other site 340322006504 H-loop/switch region; other site 340322006505 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 340322006506 catalytic residues [active] 340322006507 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 340322006508 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 340322006509 catalytic Zn binding site [ion binding]; other site 340322006510 NAD binding site [chemical binding]; other site 340322006511 structural Zn binding site [ion binding]; other site 340322006512 Isochorismatase family; Region: Isochorismatase; pfam00857 340322006513 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 340322006514 catalytic triad [active] 340322006515 conserved cis-peptide bond; other site 340322006516 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322006517 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322006518 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 340322006519 CGNR zinc finger; Region: zf-CGNR; pfam11706 340322006520 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 340322006521 Uncharacterized conserved protein [Function unknown]; Region: COG3875 340322006522 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 340322006523 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 340322006524 Ligand Binding Site [chemical binding]; other site 340322006525 AIR carboxylase; Region: AIRC; cl00310 340322006526 Uncharacterized conserved protein [Function unknown]; Region: COG1641; cl03398 340322006527 Protein of unknown function DUF111; Region: DUF111; pfam01969 340322006528 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 340322006529 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 340322006530 classical (c) SDRs; Region: SDR_c; cd05233 340322006531 NAD(P) binding site [chemical binding]; other site 340322006532 active site 340322006533 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 340322006534 putative active site [active] 340322006535 putative substrate binding site [chemical binding]; other site 340322006536 catalytic site [active] 340322006537 dimer interface [polypeptide binding]; other site 340322006538 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 340322006539 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 340322006540 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 340322006541 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 340322006542 choline transport protein BetT; Provisional; Region: PRK09928 340322006543 BCCT family transporter; Region: BCCT; cl00569 340322006544 Glutaminase; Region: Glutaminase; cl00907 340322006545 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322006546 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322006547 DNA binding site [nucleotide binding] 340322006548 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 340322006549 dimerization interface [polypeptide binding]; other site 340322006550 ligand binding site [chemical binding]; other site 340322006551 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322006552 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322006553 DNA binding site [nucleotide binding] 340322006554 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 340322006555 dimerization interface [polypeptide binding]; other site 340322006556 ligand binding site [chemical binding]; other site 340322006557 Glucuronate isomerase; Region: UxaC; cl00829 340322006558 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 340322006559 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 340322006560 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 340322006561 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 340322006562 glucuronide transporter; Provisional; Region: PRK09848 340322006563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006564 putative substrate translocation pore; other site 340322006565 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 340322006566 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 340322006567 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 340322006568 ATP-binding site [chemical binding]; other site 340322006569 Gluconate-6-phosphate binding site [chemical binding]; other site 340322006570 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...; Region: HNHc; cd00085 340322006571 active site 340322006572 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...; Region: HNHc; cd00085 340322006573 active site 340322006574 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 340322006575 Isochorismatase family; Region: Isochorismatase; pfam00857 340322006576 catalytic triad [active] 340322006577 metal binding site [ion binding]; metal-binding site 340322006578 conserved cis-peptide bond; other site 340322006579 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 340322006580 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...; Region: PRX_BCP; cd03017 340322006581 catalytic triad [active] 340322006582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322006583 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322006584 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 340322006585 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 340322006586 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006587 putative substrate translocation pore; other site 340322006588 Acyl transferase domain; Region: Acyl_transf_1; cl08282 340322006589 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 340322006590 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 340322006591 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; cl09108 340322006592 phosphate binding site [ion binding]; other site 340322006593 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 340322006594 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 340322006595 active site 2 [active] 340322006596 active site 1 [active] 340322006597 Acyl transferase domain; Region: Acyl_transf_1; cl08282 340322006598 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 340322006599 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 340322006600 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 340322006601 putative NAD(P) binding site [chemical binding]; other site 340322006602 active site 340322006603 '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) thioesters as...; Region: elong_cond_enzymes; cd00828 340322006604 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 340322006605 active site 340322006606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006607 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 340322006608 NAD(P) binding site [chemical binding]; other site 340322006609 active site 340322006610 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 340322006611 Glucitol operon activator protein (GutM); Region: GutM; cl01890 340322006612 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 340322006613 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 Ham1-...; Region: HAM1; cd00515 340322006614 active site 340322006615 dimerization interface [polypeptide binding]; other site 340322006616 ribonuclease PH; Reviewed; Region: rph; PRK00173 340322006617 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 340322006618 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 340322006619 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340322006620 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 340322006621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322006622 Rhomboid family; Region: Rhomboid; cl11446 340322006623 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 340322006624 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 340322006625 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 340322006626 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 340322006627 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...; Region: NAPRTase_A; cd01570 340322006628 active site 340322006629 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 340322006630 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 340322006631 Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in...; Region: PTH2_family; cl00869 340322006632 dimer interface [polypeptide binding]; other site 340322006633 putative active site [active] 340322006634 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 340322006635 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 340322006636 D-pathway; other site 340322006637 Putative ubiquinol binding site [chemical binding]; other site 340322006638 Low-spin heme (heme b) binding site [chemical binding]; other site 340322006639 Putative water exit pathway; other site 340322006640 Binuclear center (heme o3/CuB) [ion binding]; other site 340322006641 K-pathway; other site 340322006642 Putative proton exit pathway; other site 340322006643 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 340322006644 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 340322006645 dimer interface [polypeptide binding]; other site 340322006646 putative radical transfer pathway; other site 340322006647 diiron center [ion binding]; other site 340322006648 tyrosyl radical; other site 340322006649 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 340322006650 Ferritin-like domain; Region: Ferritin; pfam00210 340322006651 ferroxidase diiron center [ion binding]; other site 340322006652 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322006653 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322006654 DNA-binding site [nucleotide binding]; DNA binding site 340322006655 FCD domain; Region: FCD; cl11656 340322006656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322006657 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 340322006658 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 340322006659 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 340322006660 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 340322006661 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 340322006662 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 340322006663 Class I ribonucleotide reductase; Region: RNR_I; cd01679 340322006664 active site 340322006665 dimer interface [polypeptide binding]; other site 340322006666 catalytic residues [active] 340322006667 effector binding site; other site 340322006668 R2 peptide binding site; other site 340322006669 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340322006670 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...; Region: NrdH; cd02976 340322006671 catalytic residues [active] 340322006672 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 340322006673 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 340322006674 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...; Region: NAD_synthase; cd00553 340322006675 homodimer interface [polypeptide binding]; other site 340322006676 NAD binding pocket [chemical binding]; other site 340322006677 ATP binding pocket [chemical binding]; other site 340322006678 Mg binding site [ion binding]; other site 340322006679 active-site loop [active] 340322006680 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340322006681 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 340322006682 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 340322006683 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 340322006684 NADP binding site [chemical binding]; other site 340322006685 dimer interface [polypeptide binding]; other site 340322006686 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 340322006687 phosphoglucomutase; Validated; Region: PRK07564 340322006688 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 340322006689 active site 340322006690 substrate binding site [chemical binding]; other site 340322006691 metal binding site [ion binding]; metal-binding site 340322006692 CrcB-like protein; Region: CRCB; cl09114 340322006693 CrcB-like protein; Region: CRCB; cl09114 340322006694 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 340322006695 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 340322006696 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 340322006697 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340322006698 FtsX-like permease family; Region: FtsX; pfam02687 340322006699 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340322006700 FtsX-like permease family; Region: FtsX; pfam02687 340322006701 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 340322006702 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322006703 Walker A/P-loop; other site 340322006704 ATP binding site [chemical binding]; other site 340322006705 Q-loop/lid; other site 340322006706 ABC transporter signature motif; other site 340322006707 Walker B; other site 340322006708 D-loop; other site 340322006709 H-loop/switch region; other site 340322006710 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322006711 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322006712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006713 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322006714 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322006715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006716 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322006717 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 340322006718 putative transporter; Provisional; Region: PRK11462 340322006719 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 340322006720 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 340322006721 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 340322006722 hinge; other site 340322006723 active site 340322006724 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 340322006725 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...; Region: LuxR_C_like; cd06170 340322006726 DNA binding residues [nucleotide binding] 340322006727 dimerization interface [polypeptide binding]; other site 340322006728 cysteine synthases; Region: cysKM; TIGR01136 340322006729 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 340322006730 dimer interface [polypeptide binding]; other site 340322006731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006732 catalytic residue [active] 340322006733 serine O-acetyltransferase; Region: cysE; TIGR01172 340322006734 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 L-...; Region: LbH_SAT; cd03354 340322006735 trimer interface [polypeptide binding]; other site 340322006736 active site 340322006737 substrate binding site [chemical binding]; other site 340322006738 CoA binding site [chemical binding]; other site 340322006739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322006740 Coenzyme A binding pocket [chemical binding]; other site 340322006741 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 340322006742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006743 CoA-ligase; Region: Ligase_CoA; pfam00549 340322006744 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 340322006745 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322006746 CoA-ligase; Region: Ligase_CoA; pfam00549 340322006747 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 340322006748 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 340322006749 catalytic residues [active] 340322006750 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 340322006751 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 340322006752 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 340322006753 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 340322006754 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...; Region: DUS_like_FMN; cd02801 340322006755 FMN binding site [chemical binding]; other site 340322006756 active site 340322006757 catalytic residues [active] 340322006758 substrate binding site [chemical binding]; other site 340322006759 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 340322006760 PhoU domain; Region: PhoU; pfam01895 340322006761 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 340322006762 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 340322006763 Walker A/P-loop; other site 340322006764 ATP binding site [chemical binding]; other site 340322006765 Q-loop/lid; other site 340322006766 ABC transporter signature motif; other site 340322006767 Walker B; other site 340322006768 D-loop; other site 340322006769 H-loop/switch region; other site 340322006770 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 340322006771 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322006772 dimer interface [polypeptide binding]; other site 340322006773 conserved gate region; other site 340322006774 putative PBP binding loops; other site 340322006775 ABC-ATPase subunit interface; other site 340322006776 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 340322006777 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322006778 dimer interface [polypeptide binding]; other site 340322006779 conserved gate region; other site 340322006780 putative PBP binding loops; other site 340322006781 ABC-ATPase subunit interface; other site 340322006782 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 340322006783 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 340322006784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340322006785 Coenzyme A binding pocket [chemical binding]; other site 340322006786 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322006787 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 340322006788 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 340322006789 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 340322006790 heme-binding site [chemical binding]; other site 340322006791 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 340322006792 Aminotransferase class IV; Region: Aminotran_4; pfam01063 340322006793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006794 catalytic residue [active] 340322006795 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 340322006796 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 340322006797 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 340322006798 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 340322006799 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 340322006800 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...; Region: PurM; cd02196 340322006801 dimerization interface [polypeptide binding]; other site 340322006802 putative ATP binding site [chemical binding]; other site 340322006803 amidophosphoribosyltransferase; Provisional; Region: PRK07847 340322006804 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 340322006805 active site 340322006806 tetramer interface [polypeptide binding]; other site 340322006807 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322006808 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322006809 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...; Region: BFIT_BACH; cd03442 340322006810 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...; Region: BFIT_BACH; cd03442 340322006811 Haemolysin-III related; Region: HlyIII; cl03831 340322006812 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 340322006813 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 340322006814 dimerization interface [polypeptide binding]; other site 340322006815 ATP binding site [chemical binding]; other site 340322006816 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 340322006817 dimerization interface [polypeptide binding]; other site 340322006818 ATP binding site [chemical binding]; other site 340322006819 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 340322006820 putative active site [active] 340322006821 catalytic triad [active] 340322006822 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 340322006823 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...; Region: GSH_Peroxidase; cd00340 340322006824 catalytic residues [active] 340322006825 dimer interface [polypeptide binding]; other site 340322006826 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 340322006827 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 340322006828 generic binding surface II; other site 340322006829 generic binding surface I; other site 340322006830 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 340322006831 putative active site [active] 340322006832 putative catalytic site [active] 340322006833 putative Mg binding site IVb [ion binding]; other site 340322006834 putative phosphate binding site [ion binding]; other site 340322006835 putative DNA binding site [nucleotide binding]; other site 340322006836 putative Mg binding site IVa [ion binding]; other site 340322006837 Predicted deacetylase [General function prediction only]; Region: COG3233 340322006838 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 340322006839 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 340322006840 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; cl12031 340322006841 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 340322006842 ATP binding site [chemical binding]; other site 340322006843 active site 340322006844 substrate binding site [chemical binding]; other site 340322006845 adenylosuccinate lyase; Region: purB; TIGR00928 340322006846 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 340322006847 tetramer interface [polypeptide binding]; other site 340322006848 aspartate aminotransferase; Provisional; Region: PRK08361 340322006849 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 340322006850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006851 homodimer interface [polypeptide binding]; other site 340322006852 catalytic residue [active] 340322006853 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 340322006854 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 340322006855 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322006856 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 340322006857 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...; Region: HIT_like; cl00228 340322006858 nucleotide binding site/active site [active] 340322006859 HIT family signature motif; other site 340322006860 catalytic residue [active] 340322006861 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 340322006862 S-adenosylmethionine binding site [chemical binding]; other site 340322006863 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 340322006864 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 340322006865 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05630 340322006866 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 340322006867 inhibitor-cofactor binding pocket; inhibition site 340322006868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322006869 catalytic residue [active] 340322006870 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 340322006871 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 340322006872 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 340322006873 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 connected by an extended linker. The...; Region: HAMP; cd06225 340322006874 dimerization interface [polypeptide binding]; other site 340322006875 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 trans-...; Region: HisKA; cd00082 340322006876 dimer interface [polypeptide binding]; other site 340322006877 phosphorylation site [posttranslational modification] 340322006878 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 340322006879 ATP binding site [chemical binding]; other site 340322006880 Mg2+ binding site [ion binding]; other site 340322006881 G-X-G motif; other site 340322006882 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322006883 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 340322006884 active site 340322006885 phosphorylation site [posttranslational modification] 340322006886 intermolecular recognition site; other site 340322006887 dimerization interface [polypeptide binding]; other site 340322006888 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...; Region: trans_reg_C; cd00383 340322006889 DNA binding site [nucleotide binding] 340322006890 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 340322006891 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 340322006892 DNA binding residues [nucleotide binding] 340322006893 dimer interface [polypeptide binding]; other site 340322006894 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 340322006895 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 340322006896 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 340322006897 dimer interface [polypeptide binding]; other site 340322006898 active site 340322006899 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340322006900 substrate binding site [chemical binding]; other site 340322006901 catalytic residue [active] 340322006902 pyruvate dehydrogenase; Provisional; Region: PRK06546 340322006903 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 340322006904 PYR/PP interface [polypeptide binding]; other site 340322006905 tetramer interface [polypeptide binding]; other site 340322006906 dimer interface [polypeptide binding]; other site 340322006907 TPP binding site [chemical binding]; other site 340322006908 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 340322006909 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...; Region: TPP_POX; cd02014 340322006910 TPP-binding site [chemical binding]; other site 340322006911 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322006913 putative substrate translocation pore; other site 340322006914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006915 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322006916 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322006917 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 340322006918 Ion channel regulatory protein UNC-93; Region: UNC-93; pfam05978 340322006919 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 340322006920 active site 340322006921 catalytic residues [active] 340322006922 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 340322006923 active site 340322006924 catalytic residues [active] 340322006925 putative succinate dehydrogenase; Reviewed; Region: PRK12842 340322006926 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322006927 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322006928 putative succinate dehydrogenase; Reviewed; Region: PRK12842 340322006929 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 340322006930 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 340322006931 NAD(P) binding site [chemical binding]; other site 340322006932 YCII-related domain; Region: YCII; cl00999 340322006933 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006934 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322006935 putative substrate translocation pore; other site 340322006936 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 340322006937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322006938 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 340322006939 dimerization interface [polypeptide binding]; other site 340322006940 substrate binding pocket [chemical binding]; other site 340322006941 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 340322006942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006943 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 340322006944 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 340322006945 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 340322006946 active site 340322006947 motif I; other site 340322006948 motif II; other site 340322006949 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; cl11391 340322006950 Domain of unknown function (DU1801); Region: DUF1801; cl01838 340322006951 Uncharacterized conserved protein [Function unknown]; Region: COG2966 340322006952 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 340322006953 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 340322006954 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 340322006955 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...; Region: GT1_TPS; cd03788 340322006956 active site 340322006957 homotetramer interface [polypeptide binding]; other site 340322006958 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; cl11391 340322006959 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 340322006960 Transcriptional regulators [Transcription]; Region: PurR; COG1609 340322006961 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 340322006962 DNA binding site [nucleotide binding] 340322006963 domain linker motif; other site 340322006964 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 340322006965 putative dimerization interface [polypeptide binding]; other site 340322006966 putative ligand binding site [chemical binding]; other site 340322006967 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...; Region: TroA-like; cl00262 340322006968 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 340322006969 intersubunit interface [polypeptide binding]; other site 340322006970 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 340322006971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322006972 Walker A/P-loop; other site 340322006973 ATP binding site [chemical binding]; other site 340322006974 Q-loop/lid; other site 340322006975 ABC transporter signature motif; other site 340322006976 Walker B; other site 340322006977 D-loop; other site 340322006978 H-loop/switch region; other site 340322006979 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...; Region: TM_ABC_iron-siderophores_like; cl00462 340322006980 dimer interface [polypeptide binding]; other site 340322006981 putative PBP binding regions; other site 340322006982 ABC-ATPase subunit interface; other site 340322006983 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322006984 putative succinate dehydrogenase; Reviewed; Region: PRK12842 340322006985 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 340322006986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322006987 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322006988 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322006989 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322006990 putative substrate translocation pore; other site 340322006991 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322006992 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322006993 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322006994 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340322006995 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 340322006996 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340322006997 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 340322006998 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322006999 active site 340322007000 HIGH motif; other site 340322007001 nucleotide binding site [chemical binding]; other site 340322007002 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 340322007003 KMSKS motif; other site 340322007004 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340322007005 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 340322007006 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...; Region: PTS_IIB_glc; cd00212 340322007007 active site turn [active] 340322007008 phosphorylation site [posttranslational modification] 340322007009 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 340322007010 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 340322007011 HPr interaction site; other site 340322007012 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322007013 active site 340322007014 phosphorylation site [posttranslational modification] 340322007015 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 340322007016 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 340322007017 substrate binding [chemical binding]; other site 340322007018 active site 340322007019 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...; Region: GlcN6P_deaminase; cd01399 340322007020 active site 340322007021 trimer interface [polypeptide binding]; other site 340322007022 allosteric site; other site 340322007023 active site lid [active] 340322007024 hexamer (dimer of trimers) interface [polypeptide binding]; other site 340322007025 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 340322007026 active site 340322007027 dimer interface [polypeptide binding]; other site 340322007028 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 340322007029 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 340322007030 inhibitor site; inhibition site 340322007031 active site 340322007032 dimer interface [polypeptide binding]; other site 340322007033 catalytic residue [active] 340322007034 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340322007035 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...; Region: NanE; cd04729 340322007036 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 340322007037 putative active site cavity [active] 340322007038 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 340322007039 catalytic site [active] 340322007040 Asp-box motif; other site 340322007041 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322007042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007043 DNA-binding site [nucleotide binding]; DNA binding site 340322007044 FCD domain; Region: FCD; cl11656 340322007045 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 340322007046 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 340322007047 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340322007048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 340322007049 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 340322007050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 340322007051 dimer interface [polypeptide binding]; other site 340322007052 conserved gate region; other site 340322007053 putative PBP binding loops; other site 340322007054 ABC-ATPase subunit interface; other site 340322007055 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 340322007056 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322007057 Walker A/P-loop; other site 340322007058 ATP binding site [chemical binding]; other site 340322007059 Q-loop/lid; other site 340322007060 ABC transporter signature motif; other site 340322007061 Walker B; other site 340322007062 D-loop; other site 340322007063 H-loop/switch region; other site 340322007064 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322007065 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 340322007066 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340322007067 Walker A/P-loop; other site 340322007068 ATP binding site [chemical binding]; other site 340322007069 Q-loop/lid; other site 340322007070 ABC transporter signature motif; other site 340322007071 Walker B; other site 340322007072 D-loop; other site 340322007073 H-loop/switch region; other site 340322007074 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340322007075 LysE type translocator; Region: LysE; cl00565 340322007076 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 340322007077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007078 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...; Region: MECDP_synthase; cd00554 340322007079 homotrimer interaction site [polypeptide binding]; other site 340322007080 zinc binding site [ion binding]; other site 340322007081 CDP-binding sites; other site 340322007082 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 340322007083 substrate binding site [chemical binding]; other site 340322007084 dimer interface [polypeptide binding]; other site 340322007085 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 340322007086 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340322007087 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 340322007088 active site 340322007089 phosphorylation site [posttranslational modification] 340322007090 intermolecular recognition site; other site 340322007091 dimerization interface [polypeptide binding]; other site 340322007092 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...; Region: trans_reg_C; cd00383 340322007093 DNA binding site [nucleotide binding] 340322007094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 340322007095 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 connected by an extended linker. The...; Region: HAMP; cd06225 340322007096 dimerization interface [polypeptide binding]; other site 340322007097 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 trans-...; Region: HisKA; cd00082 340322007098 dimer interface [polypeptide binding]; other site 340322007099 phosphorylation site [posttranslational modification] 340322007100 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 340322007101 ATP binding site [chemical binding]; other site 340322007102 Mg2+ binding site [ion binding]; other site 340322007103 G-X-G motif; other site 340322007104 DNA repair protein RadA; Provisional; Region: PRK11823 340322007105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322007106 Walker A motif; other site 340322007107 ATP binding site [chemical binding]; other site 340322007108 Walker B motif; other site 340322007109 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 340322007110 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 340322007111 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 340322007112 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 340322007113 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 340322007114 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322007115 NAD(P) binding site [chemical binding]; other site 340322007116 catalytic residues [active] 340322007117 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 340322007118 active site clefts [active] 340322007119 zinc binding site [ion binding]; other site 340322007120 dimer interface [polypeptide binding]; other site 340322007121 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 340322007122 endonuclease III; Region: ENDO3c; smart00478 340322007123 minor groove reading motif; other site 340322007124 helix-hairpin-helix signature motif; other site 340322007125 substrate binding pocket [chemical binding]; other site 340322007126 active site 340322007127 FES domain; Region: FES; smart00525 340322007128 Mono-functional DNA-alkylating methyl methanesulfonate N-term; Region: MMS1_N; pfam10433 340322007129 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 340322007130 acetoin reductases; Region: 23BDH; TIGR02415 340322007131 NAD binding site [chemical binding]; other site 340322007132 homotetramer interface [polypeptide binding]; other site 340322007133 homodimer interface [polypeptide binding]; other site 340322007134 active site 340322007135 substrate binding site [chemical binding]; other site 340322007136 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 340322007137 Clp protease ATP binding subunit; Region: clpC; CHL00095 340322007138 Clp amino terminal domain; Region: Clp_N; pfam02861 340322007139 Clp amino terminal domain; Region: Clp_N; pfam02861 340322007140 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...; Region: AAA; cd00009 340322007141 Walker A motif; other site 340322007142 ATP binding site [chemical binding]; other site 340322007143 Walker B motif; other site 340322007144 arginine finger; other site 340322007145 UvrB/uvrC motif; Region: UVR; pfam02151 340322007146 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...; Region: AAA; cd00009 340322007147 Walker A motif; other site 340322007148 ATP binding site [chemical binding]; other site 340322007149 Walker B motif; other site 340322007150 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 340322007151 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 340322007152 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; cl09108 340322007153 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-...; Region: CBS_pair; cl10010 340322007154 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 the...; Region: IMPDH; cd00381 340322007155 active site 340322007156 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 340322007157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 340322007158 phenol 2-monooxygenase; Provisional; Region: PRK08294 340322007159 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322007160 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 340322007161 dimer interface [polypeptide binding]; other site 340322007162 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 340322007163 Integrase core domain; Region: rve; cl01316 340322007164 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340322007165 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007166 putative substrate translocation pore; other site 340322007167 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007168 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 340322007169 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-...; Region: LysRS_N; cd04322 340322007170 dimer interface [polypeptide binding]; other site 340322007171 putative anticodon binding site; other site 340322007172 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 340322007173 motif 1; other site 340322007174 active site 340322007175 motif 2; other site 340322007176 motif 3; other site 340322007177 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322007178 pantoate--beta-alanine ligase; Region: panC; TIGR00018 340322007179 active site 340322007180 nucleotide binding site [chemical binding]; other site 340322007181 HIGH motif; other site 340322007182 KMSKS motif; other site 340322007183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322007184 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 340322007185 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 340322007186 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 340322007187 catalytic center binding site [active] 340322007188 ATP binding site [chemical binding]; other site 340322007189 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...; Region: DHNA_DHNTPE; cd00534 340322007190 homooctamer interface [polypeptide binding]; other site 340322007191 active site 340322007192 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 340322007193 dihydropteroate synthase; Region: DHPS; TIGR01496 340322007194 substrate binding pocket [chemical binding]; other site 340322007195 dimer interface [polypeptide binding]; other site 340322007196 inhibitor binding site; inhibition site 340322007197 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 340322007198 homodecamer interface [polypeptide binding]; other site 340322007199 GTP cyclohydrolase I; Provisional; Region: PLN03044 340322007200 active site 340322007201 putative catalytic site residues [active] 340322007202 zinc binding site [ion binding]; other site 340322007203 GTP-CH-I/GFRP interaction surface; other site 340322007204 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 340322007205 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...; Region: AAA; cd00009 340322007206 Walker A motif; other site 340322007207 ATP binding site [chemical binding]; other site 340322007208 Walker B motif; other site 340322007209 arginine finger; other site 340322007210 Peptidase family M41; Region: Peptidase_M41; pfam01434 340322007211 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322007212 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 340322007213 Ligand Binding Site [chemical binding]; other site 340322007214 Beta-lactamase; Region: Beta-lactamase; cl01009 340322007215 PBP4 family; Region: PBP4; TIGR00666 340322007216 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 340322007217 dimer interface [polypeptide binding]; other site 340322007218 substrate binding site [chemical binding]; other site 340322007219 metal binding sites [ion binding]; metal-binding site 340322007220 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; cl12011 340322007221 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 340322007222 Predicted membrane protein [Function unknown]; Region: COG3766 340322007223 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 340322007224 Protein of unknown function DUF2617; Region: DUF2617; pfam10936 340322007225 transcriptional antiterminator BglG; Provisional; Region: PRK09772 340322007226 CAT RNA binding domain; Region: CAT_RBD; pfam03123 340322007227 PRD domain; Region: PRD; pfam00874 340322007228 PRD domain; Region: PRD; pfam00874 340322007229 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 340322007230 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 340322007231 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...; Region: PTS_IIB_glc; cd00212 340322007232 active site turn [active] 340322007233 phosphorylation site [posttranslational modification] 340322007234 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 340322007235 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 340322007236 HPr interaction site; other site 340322007237 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322007238 active site 340322007239 phosphorylation site [posttranslational modification] 340322007240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 340322007241 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322007242 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 340322007243 active site residue [active] 340322007244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007245 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 340322007246 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 340322007247 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322007248 peptide synthase; Validated; Region: PRK05691 340322007249 Phosphopantetheine attachment site; Region: PP-binding; cl09936 340322007250 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 340322007251 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 340322007252 putative CoA binding site [chemical binding]; other site 340322007253 putative trimer interface [polypeptide binding]; other site 340322007254 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 340322007255 putative trimer interface [polypeptide binding]; other site 340322007256 putative CoA binding site [chemical binding]; other site 340322007257 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322007258 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 2-like; Region: ALDH_SSADH2_GabD2; cd07101 340322007259 NAD(P) binding site [chemical binding]; other site 340322007260 catalytic residues [active] 340322007261 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 340322007262 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 340322007263 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 340322007264 ring oligomerisation interface [polypeptide binding]; other site 340322007265 ATP/Mg binding site [chemical binding]; other site 340322007266 stacking interactions; other site 340322007267 hinge regions; other site 340322007268 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 340322007269 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 340322007270 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 340322007271 active site 340322007272 metal binding site [ion binding]; metal-binding site 340322007273 dimer interface [polypeptide binding]; other site 340322007274 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 340322007275 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 340322007276 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 340322007277 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 340322007278 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 340322007279 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 340322007280 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 340322007281 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 340322007282 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 340322007283 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 340322007284 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340322007285 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 340322007286 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 340322007287 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 340322007288 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(...; Region: Pep_deformylase; cd00487 340322007289 active site 340322007290 catalytic residues [active] 340322007291 metal binding site [ion binding]; metal-binding site 340322007292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322007293 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 340322007294 putative phosphate binding site [ion binding]; other site 340322007295 putative catalytic site [active] 340322007296 active site 340322007297 metal binding site A [ion binding]; metal-binding site 340322007298 DNA binding site [nucleotide binding] 340322007299 putative AP binding site [nucleotide binding]; other site 340322007300 putative metal binding site B [ion binding]; other site 340322007301 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 340322007302 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 340322007303 putative active site [active] 340322007304 catalytic site [active] 340322007305 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 340322007306 putative active site [active] 340322007307 catalytic site [active] 340322007308 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 340322007309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007310 putative substrate translocation pore; other site 340322007311 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 340322007312 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 340322007313 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 340322007314 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 340322007315 ABC-2 type transporter; Region: ABC2_membrane; cl11417 340322007316 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 340322007317 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322007318 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322007319 Walker A/P-loop; other site 340322007320 ATP binding site [chemical binding]; other site 340322007321 Q-loop/lid; other site 340322007322 ABC transporter signature motif; other site 340322007323 Walker B; other site 340322007324 D-loop; other site 340322007325 H-loop/switch region; other site 340322007326 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...; Region: Nudix_Hydrolase; cl00447 340322007327 nudix motif; other site 340322007328 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 340322007329 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...; Region: PBPb; cd00134 340322007330 substrate binding pocket [chemical binding]; other site 340322007331 membrane-bound complex binding site; other site 340322007332 hinge residues; other site 340322007333 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 340322007334 Catalytic domain of Protein Kinases; Region: PKc; cd00180 340322007335 active site 340322007336 ATP binding site [chemical binding]; other site 340322007337 substrate binding site [chemical binding]; other site 340322007338 activation loop (A-loop); other site 340322007339 Acetokinase family; Region: Acetate_kinase; cl01029 340322007340 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 340322007341 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 340322007342 ferredoxin-NADP+ reductase; Region: PLN02852 340322007343 hypothetical protein; Provisional; Region: PRK09897 340322007344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322007345 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 340322007346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322007347 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 340322007348 adenylosuccinate synthetase; Provisional; Region: PRK01117 340322007349 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 r-...; Region: AdSS; cd03108 340322007350 GDP-binding site [chemical binding]; other site 340322007351 ACT binding site; other site 340322007352 IMP binding site; other site 340322007353 Predicted membrane protein [Function unknown]; Region: COG4129 340322007354 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 340322007355 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 340322007356 active site 340322007357 intersubunit interface [polypeptide binding]; other site 340322007358 zinc binding site [ion binding]; other site 340322007359 Na+ binding site [ion binding]; other site 340322007360 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 340322007361 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340322007362 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 340322007363 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 340322007364 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...; Region: TST_Repeat_1; cd01448 340322007365 active site residue [active] 340322007366 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 340322007367 active site residue [active] 340322007368 H+ Antiporter protein; Region: 2A0121; TIGR00900 340322007369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007370 putative substrate translocation pore; other site 340322007371 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 340322007372 Clp amino terminal domain; Region: Clp_N; pfam02861 340322007373 Clp amino terminal domain; Region: Clp_N; pfam02861 340322007374 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...; Region: AAA; cd00009 340322007375 Walker A motif; other site 340322007376 ATP binding site [chemical binding]; other site 340322007377 Walker B motif; other site 340322007378 arginine finger; other site 340322007379 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...; Region: AAA; cd00009 340322007380 Walker A motif; other site 340322007381 ATP binding site [chemical binding]; other site 340322007382 Walker B motif; other site 340322007383 arginine finger; other site 340322007384 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 340322007385 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 340322007386 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322007387 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322007388 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322007389 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 340322007390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340322007391 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 340322007392 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...; Region: FNR_like; cl06868 340322007393 FAD binding pocket [chemical binding]; other site 340322007394 conserved FAD binding motif [chemical binding]; other site 340322007395 phosphate binding motif [ion binding]; other site 340322007396 beta-alpha-beta structure motif; other site 340322007397 NAD binding pocket [chemical binding]; other site 340322007398 Predicted amidohydrolase [General function prediction only]; Region: COG0388 340322007399 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 340322007400 putative active site [active] 340322007401 catalytic triad [active] 340322007402 putative dimer interface [polypeptide binding]; other site 340322007403 Alpha/beta hydrolase of unknown function (DUF1023); Region: DUF1023; pfam06259 340322007404 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 340322007405 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322007406 NAD(P) binding site [chemical binding]; other site 340322007407 catalytic residues [active] 340322007408 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 340322007409 DNA binding residues [nucleotide binding] 340322007410 putative dimer interface [polypeptide binding]; other site 340322007411 chaperone protein DnaJ; Provisional; Region: PRK14279 340322007412 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...; Region: DnaJ; cd06257 340322007413 HSP70 interaction site [polypeptide binding]; other site 340322007414 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 340322007415 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 340322007416 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 340322007417 dimer interface [polypeptide binding]; other site 340322007418 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 340322007419 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 340322007420 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 340322007421 Domain of unknown function DUF20; Region: UPF0118; cl00465 340322007422 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 340322007423 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 340322007424 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 340322007425 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 340322007426 NAD binding site [chemical binding]; other site 340322007427 substrate binding site [chemical binding]; other site 340322007428 catalytic Zn binding site [ion binding]; other site 340322007429 tetramer interface [polypeptide binding]; other site 340322007430 structural Zn binding site [ion binding]; other site 340322007431 Putative Ig domain; Region: He_PIG; cl09256 340322007432 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 340322007433 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 340322007434 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...; Region: CbiX_SirB_N; cd03416 340322007435 putative active site [active] 340322007436 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...; Region: Chelatase_Class_II; cl02784 340322007437 active site 340322007438 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 340322007439 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 340322007440 CysD dimerization site [polypeptide binding]; other site 340322007441 G1 box; other site 340322007442 putative GEF interaction site [polypeptide binding]; other site 340322007443 GTP/Mg2+ binding site [chemical binding]; other site 340322007444 Switch I region; other site 340322007445 G2 box; other site 340322007446 G3 box; other site 340322007447 Switch II region; other site 340322007448 G4 box; other site 340322007449 G5 box; other site 340322007450 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...; Region: CysN_NodQ_II; cd03695 340322007451 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-...; Region: Translation_factor_III; cl02786 340322007452 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 340322007453 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 340322007454 Active Sites [active] 340322007455 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 340322007456 Active Sites [active] 340322007457 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 340322007458 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340322007459 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340322007460 ferredoxin-NADP+ reductase; Region: PLN02852 340322007461 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 340322007462 dimer interface [polypeptide binding]; other site 340322007463 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 340322007464 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 340322007465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 340322007466 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 340322007467 Predicted ATPase [General function prediction only]; Region: COG3910 340322007468 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 340322007469 Walker A/P-loop; other site 340322007470 ATP binding site [chemical binding]; other site 340322007471 Q-loop/lid; other site 340322007472 ABC transporter signature motif; other site 340322007473 Walker B; other site 340322007474 D-loop; other site 340322007475 H-loop/switch region; other site 340322007476 Predicted ATPase [General function prediction only]; Region: COG3910 340322007477 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 340322007478 Walker A/P-loop; other site 340322007479 ATP binding site [chemical binding]; other site 340322007480 Q-loop/lid; other site 340322007481 ABC transporter signature motif; other site 340322007482 Walker B; other site 340322007483 D-loop; other site 340322007484 H-loop/switch region; other site 340322007485 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007486 putative substrate translocation pore; other site 340322007487 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 340322007488 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 340322007489 putative metal binding site [ion binding]; other site 340322007490 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 340322007491 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322007492 Walker A/P-loop; other site 340322007493 ATP binding site [chemical binding]; other site 340322007494 Q-loop/lid; other site 340322007495 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 340322007496 ABC transporter signature motif; other site 340322007497 Walker B; other site 340322007498 D-loop; other site 340322007499 H-loop/switch region; other site 340322007500 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 340322007501 Walker A/P-loop; other site 340322007502 ATP binding site [chemical binding]; other site 340322007503 Q-loop/lid; other site 340322007504 ABC transporter signature motif; other site 340322007505 Walker B; other site 340322007506 D-loop; other site 340322007507 H-loop/switch region; other site 340322007508 Cobalt transport protein; Region: CbiQ; cl00463 340322007509 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...; Region: NfsA_FRP; cd02146 340322007510 dimer interface [polypeptide binding]; other site 340322007511 FMN binding site [chemical binding]; other site 340322007512 NADPH bind site [chemical binding]; other site 340322007513 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 340322007514 active site 340322007515 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 340322007516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 340322007517 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 340322007518 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 340322007519 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 340322007520 heme-binding site [chemical binding]; other site 340322007521 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 340322007522 FAD binding pocket [chemical binding]; other site 340322007523 FAD binding motif [chemical binding]; other site 340322007524 phosphate binding motif [ion binding]; other site 340322007525 beta-alpha-beta structure motif; other site 340322007526 NAD binding pocket [chemical binding]; other site 340322007527 Heme binding pocket [chemical binding]; other site 340322007528 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 340322007529 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 340322007530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322007531 CAT RNA binding domain; Region: CAT_RBD; pfam03123 340322007532 transcriptional antiterminator BglG; Provisional; Region: PRK09772 340322007533 PRD domain; Region: PRD; pfam00874 340322007534 PRD domain; Region: PRD; pfam00874 340322007535 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 340322007536 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 340322007537 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...; Region: PTS_IIB_glc; cd00212 340322007538 active site turn [active] 340322007539 phosphorylation site [posttranslational modification] 340322007540 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 340322007541 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 340322007542 HPr interaction site; other site 340322007543 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340322007544 active site 340322007545 phosphorylation site [posttranslational modification] 340322007546 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 340322007547 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...; Region: TroA-like; cl00262 340322007548 intersubunit interface [polypeptide binding]; other site 340322007549 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322007550 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322007551 ABC-ATPase subunit interface; other site 340322007552 dimer interface [polypeptide binding]; other site 340322007553 putative PBP binding regions; other site 340322007554 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 340322007555 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...; Region: TM_ABC_iron-siderophores_like; cd06550 340322007556 ABC-ATPase subunit interface; other site 340322007557 dimer interface [polypeptide binding]; other site 340322007558 putative PBP binding regions; other site 340322007559 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 340322007560 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 340322007561 Walker A/P-loop; other site 340322007562 ATP binding site [chemical binding]; other site 340322007563 Q-loop/lid; other site 340322007564 ABC transporter signature motif; other site 340322007565 Walker B; other site 340322007566 D-loop; other site 340322007567 H-loop/switch region; other site 340322007568 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 340322007569 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 340322007570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007571 homodimer interface [polypeptide binding]; other site 340322007572 catalytic residue [active] 340322007573 YibE/F-like protein; Region: YibE_F; cl02259 340322007574 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 340322007575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322007576 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 340322007577 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 340322007578 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 340322007579 trimer interface [polypeptide binding]; other site 340322007580 active site 340322007581 Htaa; Region: HtaA; pfam04213 340322007582 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 340322007583 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 340322007584 VanW like protein; Region: VanW; pfam04294 340322007585 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 340322007586 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 340322007587 Ligand Binding Site [chemical binding]; other site 340322007588 Protein of unknown function (DUF2613); Region: DUF2613; pfam11021 340322007589 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 340322007590 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 340322007591 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 340322007592 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340322007593 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 340322007594 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 340322007595 S-adenosylmethionine binding site [chemical binding]; other site 340322007596 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 340322007597 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 340322007598 active site 340322007599 substrate-binding site [chemical binding]; other site 340322007600 metal-binding site [ion binding] 340322007601 GTP binding site [chemical binding]; other site 340322007602 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 340322007603 gating phenylalanine in ion channel; other site 340322007604 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 340322007605 S-adenosylmethionine binding site [chemical binding]; other site 340322007606 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 340322007607 putative metal binding site [ion binding]; other site 340322007608 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 340322007609 Predicted integral membrane protein [Function unknown]; Region: COG0392 340322007610 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 340322007611 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 340322007612 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 340322007613 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322007614 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 340322007615 Phosphopantetheine attachment site; Region: PP-binding; cl09936 340322007616 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 340322007617 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 340322007618 active site 340322007619 Acyl transferase domain; Region: Acyl_transf_1; cl08282 340322007620 Phosphopantetheine attachment site; Region: PP-binding; cl09936 340322007621 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; cl12031 340322007622 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 340322007623 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 340322007624 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322007625 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322007626 Cutinase; Region: Cutinase; pfam01083 340322007627 Putative esterase; Region: Esterase; pfam00756 340322007628 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; cl12031 340322007629 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; cl12031 340322007630 LGFP repeat; Region: LGFP; pfam08310 340322007631 LGFP repeat; Region: LGFP; pfam08310 340322007632 LGFP repeat; Region: LGFP; pfam08310 340322007633 Domain of unknown function DUF222; Region: DUF222; pfam02720 340322007634 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...; Region: HNHc; cd00085 340322007635 active site 340322007636 Predicted esterase [General function prediction only]; Region: COG0627 340322007637 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; cl12031 340322007638 UbiA prenyltransferase family; Region: UbiA; cl00337 340322007639 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 340322007640 active site 340322007641 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340322007642 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 340322007643 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 340322007644 active site 340322007645 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 340322007646 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 340322007647 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322007648 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322007649 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 340322007650 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 340322007651 amidase catalytic site [active] 340322007652 Zn binding residues [ion binding]; other site 340322007653 substrate binding site [chemical binding]; other site 340322007654 LGFP repeat; Region: LGFP; pfam08310 340322007655 glycerol kinase; Provisional; Region: glpK; PRK00047 340322007656 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340322007657 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 340322007658 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 340322007659 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 340322007660 active site 340322007661 motif I; other site 340322007662 motif II; other site 340322007663 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; cl11391 340322007664 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 340322007665 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 340322007666 putative acyl-acceptor binding pocket; other site 340322007667 seryl-tRNA synthetase; Provisional; Region: PRK05431 340322007668 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 340322007669 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 340322007670 dimer interface [polypeptide binding]; other site 340322007671 active site 340322007672 motif 1; other site 340322007673 motif 2; other site 340322007674 motif 3; other site 340322007675 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 340322007676 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007677 DNA-binding site [nucleotide binding]; DNA binding site 340322007678 UTRA domain; Region: UTRA; cl06649 340322007679 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 340322007680 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 340322007681 catalytic core [active] 340322007682 prephenate dehydratase; Provisional; Region: PRK11898 340322007683 Prephenate dehydratase; Region: PDT; pfam00800 340322007684 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 340322007685 putative L-Phe binding site [chemical binding]; other site 340322007686 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 340322007687 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 340322007688 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 340322007689 active site 340322007690 catalytic site [active] 340322007691 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 340322007692 active site 340322007693 catalytic site [active] 340322007694 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 340322007695 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 340322007696 T5orf172 domain; Region: T5orf172; pfam10544 340322007697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 340322007698 YheO-like PAS domain; Region: PAS_6; pfam08348 340322007699 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 340322007700 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...; Region: metallo-dependent_hydrolases; cl00281 340322007701 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 340322007702 active site 340322007703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007704 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322007705 putative substrate translocation pore; other site 340322007706 aspartate aminotransferase; Provisional; Region: PRK08361 340322007707 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 340322007708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322007709 homodimer interface [polypeptide binding]; other site 340322007710 catalytic residue [active] 340322007711 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 340322007712 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 340322007713 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 340322007714 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 340322007715 putative active site [active] 340322007716 catalytic site [active] 340322007717 putative metal binding site [ion binding]; other site 340322007718 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; cl09110 340322007719 gluconate transporter; Region: gntP; TIGR00791 340322007720 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007721 DNA-binding site [nucleotide binding]; DNA binding site 340322007722 FCD domain; Region: FCD; cl11656 340322007723 L-asparaginase II; Region: Asparaginase_II; cl01842 340322007724 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 340322007725 Aspartase; Region: Aspartase; cd01357 340322007726 active sites [active] 340322007727 tetramer interface [polypeptide binding]; other site 340322007728 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 340322007729 Amino acid permease; Region: AA_permease; pfam00324 340322007730 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 340322007731 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; cl09155 340322007732 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; cl09155 340322007733 active site 340322007734 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 340322007735 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 340322007736 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322007737 NAD binding site [chemical binding]; other site 340322007738 dimer interface [polypeptide binding]; other site 340322007739 substrate binding site [chemical binding]; other site 340322007740 Predicted membrane protein [Function unknown]; Region: COG4425 340322007741 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 340322007742 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 340322007743 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 340322007744 motif II; other site 340322007745 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340322007746 Transcriptional regulators [Transcription]; Region: FadR; COG2186 340322007747 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007748 DNA-binding site [nucleotide binding]; DNA binding site 340322007749 FCD domain; Region: FCD; cl11656 340322007750 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 340322007751 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340322007752 active site 340322007753 metal binding site [ion binding]; metal-binding site 340322007754 metabolite-proton symporter; Region: 2A0106; TIGR00883 340322007755 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007756 putative substrate translocation pore; other site 340322007757 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 340322007758 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 340322007759 active site 340322007760 substrate binding site [chemical binding]; other site 340322007761 FMN binding site [chemical binding]; other site 340322007762 putative catalytic residues [active] 340322007763 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 340322007764 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 340322007765 Transcriptional regulators [Transcription]; Region: GntR; COG1802 340322007766 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007767 DNA-binding site [nucleotide binding]; DNA binding site 340322007768 FCD domain; Region: FCD; cl11656 340322007769 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 340322007770 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 340322007771 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 340322007772 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 340322007773 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340322007774 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 340322007775 tetrameric interface [polypeptide binding]; other site 340322007776 NAD binding site [chemical binding]; other site 340322007777 catalytic residues [active] 340322007778 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 340322007779 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 340322007780 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 340322007781 NAD(P) binding site [chemical binding]; other site 340322007782 Scramblase; Region: Scramblase; cl02043 340322007783 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 340322007784 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340322007785 metal binding site [ion binding]; metal-binding site 340322007786 putative dimer interface [polypeptide binding]; other site 340322007787 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 340322007788 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 340322007789 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 340322007790 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 340322007791 Transcriptional regulator [Transcription]; Region: LysR; COG0583 340322007792 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007793 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 340322007794 putative dimerization interface [polypeptide binding]; other site 340322007795 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007796 putative substrate translocation pore; other site 340322007797 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 340322007798 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 340322007799 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 340322007800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 340322007801 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 340322007802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322007803 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 340322007804 NAD(P) binding site [chemical binding]; other site 340322007805 active site 340322007806 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007807 putative substrate translocation pore; other site 340322007808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007809 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340322007810 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 340322007811 active site 340322007812 phosphorylation site [posttranslational modification] 340322007813 intermolecular recognition site; other site 340322007814 dimerization interface [polypeptide binding]; other site 340322007815 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...; Region: LuxR_C_like; cd06170 340322007816 DNA binding residues [nucleotide binding] 340322007817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 340322007818 Histidine kinase; Region: HisKA_3; pfam07730 340322007819 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; cl00075 340322007820 Domain of unknown function (DUF2020); Region: DUF2020; pfam09449 340322007821 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...; Region: Sortase_D_5; cd05830 340322007822 active site 340322007823 catalytic site [active] 340322007824 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 340322007825 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 340322007826 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322007827 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322007828 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 340322007829 Ligand Binding Site [chemical binding]; other site 340322007830 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 340322007831 Ligand Binding Site [chemical binding]; other site 340322007832 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 340322007833 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 340322007834 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 340322007835 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 340322007836 probable active site [active] 340322007837 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 340322007838 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 340322007839 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 340322007840 putative ligand binding site [chemical binding]; other site 340322007841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007842 Predicted transcriptional regulators [Transcription]; Region: COG1725 340322007843 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340322007844 DNA-binding site [nucleotide binding]; DNA binding site 340322007845 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 340322007846 putative metal binding site [ion binding]; other site 340322007847 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 340322007848 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 340322007849 catalytic residues [active] 340322007850 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 340322007851 metal-binding site [ion binding] 340322007852 benzoate transport; Region: 2A0115; TIGR00895 340322007853 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007854 putative substrate translocation pore; other site 340322007855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007856 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007857 replicative DNA helicase; Provisional; Region: PRK05636 340322007858 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 340322007859 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 340322007860 Walker A motif; other site 340322007861 ATP binding site [chemical binding]; other site 340322007862 Walker B motif; other site 340322007863 DNA binding loops [nucleotide binding] 340322007864 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 340322007865 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 340322007866 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 340322007867 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 340322007868 dimer interface [polypeptide binding]; other site 340322007869 ssDNA binding site [nucleotide binding]; other site 340322007870 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322007871 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 340322007872 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 340322007873 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 340322007874 Transglycosylase; Region: Transgly; cl07896 340322007875 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 340322007876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007877 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 340322007878 Ligand Binding Site [chemical binding]; other site 340322007879 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 340322007880 Ligand Binding Site [chemical binding]; other site 340322007881 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 340322007882 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 340322007883 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 340322007884 active site residue [active] 340322007885 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340322007886 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340322007887 FtsX-like permease family; Region: FtsX; pfam02687 340322007888 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340322007889 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 340322007890 Walker A/P-loop; other site 340322007891 ATP binding site [chemical binding]; other site 340322007892 Q-loop/lid; other site 340322007893 ABC transporter signature motif; other site 340322007894 Walker B; other site 340322007895 D-loop; other site 340322007896 H-loop/switch region; other site 340322007897 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340322007898 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 340322007899 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 340322007900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 340322007901 hypothetical protein; Provisional; Region: PRK13663 340322007902 Ferritin-like domain; Region: Ferritin; pfam00210 340322007903 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 340322007904 dimerization interface [polypeptide binding]; other site 340322007905 DPS ferroxidase diiron center [ion binding]; other site 340322007906 ion pore; other site 340322007907 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 340322007908 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 340322007909 putative DNA binding site [nucleotide binding]; other site 340322007910 catalytic residue [active] 340322007911 putative H2TH interface [polypeptide binding]; other site 340322007912 putative catalytic residues [active] 340322007913 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 340322007914 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 340322007915 hypothetical protein; Reviewed; Region: PRK09588 340322007916 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 340322007917 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 340322007918 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 340322007919 DNA binding site [nucleotide binding] 340322007920 active site 340322007921 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 340322007922 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 340322007923 putative NAD(P) binding site [chemical binding]; other site 340322007924 dimer interface [polypeptide binding]; other site 340322007925 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340322007926 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...; Region: TroA-like; cl00262 340322007927 intersubunit interface [polypeptide binding]; other site 340322007928 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 340322007929 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007930 putative substrate translocation pore; other site 340322007931 Malic enzyme, N-terminal domain; Region: malic; pfam00390 340322007932 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 340322007933 putative NAD(P) binding site [chemical binding]; other site 340322007934 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 340322007935 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340322007936 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 340322007937 VanZ like family; Region: VanZ; cl01971 340322007938 VanZ like family; Region: VanZ; cl01971 340322007939 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 340322007940 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322007941 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322007942 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340322007943 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 340322007944 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 340322007945 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 340322007946 metal ion-dependent adhesion site (MIDAS); other site 340322007947 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 340322007948 putative FMN binding site [chemical binding]; other site 340322007949 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 340322007950 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 340322007951 HIGH motif; other site 340322007952 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322007953 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340322007954 active site 340322007955 KMSKS motif; other site 340322007956 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 340322007957 tRNA binding surface [nucleotide binding]; other site 340322007958 Protein of unknown function (DUF454); Region: DUF454; cl01063 340322007959 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 340322007960 non-specific DNA binding site [nucleotide binding]; other site 340322007961 salt bridge; other site 340322007962 sequence-specific DNA binding site [nucleotide binding]; other site 340322007963 mycothiol-dependent maleylpyruvate isomerase; Reviewed; Region: PRK09583 340322007964 DinB superfamily; Region: DinB_2; cl00986 340322007965 MDMPI C-terminal domain; Region: MDMPI_C; pfam07398 340322007966 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 340322007967 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 340322007968 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 340322007969 Cupin domain; Region: Cupin_2; cl09118 340322007970 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322007971 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322007972 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322007973 benzoate transport; Region: 2A0115; TIGR00895 340322007974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322007975 putative substrate translocation pore; other site 340322007976 salicylate hydroxylase; Provisional; Region: PRK08163 340322007977 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322007978 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 340322007979 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 340322007980 anthranilate synthase component I; Provisional; Region: PRK13564 340322007981 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 340322007982 chorismate binding enzyme; Region: Chorismate_bind; cl10555 340322007983 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 340322007984 Glutamine amidotransferase class-I; Region: GATase; pfam00117 340322007985 glutamine binding [chemical binding]; other site 340322007986 catalytic triad [active] 340322007987 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 340322007988 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 340322007989 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 340322007990 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 340322007991 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 340322007992 active site 340322007993 ribulose/triose binding site [chemical binding]; other site 340322007994 phosphate binding site [ion binding]; other site 340322007995 substrate (anthranilate) binding pocket [chemical binding]; other site 340322007996 product (indole) binding pocket [chemical binding]; other site 340322007997 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 monomeric...; Region: PRAI; cd00405 340322007998 active site 340322007999 tryptophan synthase, beta chain; Region: PLN02618 340322008000 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 340322008001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340322008002 catalytic residue [active] 340322008003 tryptophan synthase; Region: PLN02591 340322008004 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...; Region: Tryptophan_synthase_alpha; cd04724 340322008005 substrate binding site [chemical binding]; other site 340322008006 active site 340322008007 catalytic residues [active] 340322008008 heterodimer interface [polypeptide binding]; other site 340322008009 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 340322008010 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 340322008011 active site 340322008012 phosphorylation site [posttranslational modification] 340322008013 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 340322008014 P-loop; other site 340322008015 active site 340322008016 phosphorylation site [posttranslational modification] 340322008017 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340322008018 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 340322008019 Walker A/P-loop; other site 340322008020 ATP binding site [chemical binding]; other site 340322008021 Q-loop/lid; other site 340322008022 ABC transporter signature motif; other site 340322008023 Walker B; other site 340322008024 D-loop; other site 340322008025 H-loop/switch region; other site 340322008026 ABC-2 type transporter; Region: ABC2_membrane; cl11417 340322008027 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)...; Region: Rieske; cd03467 340322008028 iron-sulfur cluster [ion binding]; other site 340322008029 [2Fe-2S] cluster binding site [ion binding]; other site 340322008030 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 340322008031 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 340322008032 active site 340322008033 FMN binding site [chemical binding]; other site 340322008034 substrate binding site [chemical binding]; other site 340322008035 homotetramer interface [polypeptide binding]; other site 340322008036 catalytic residue [active] 340322008037 Membrane transport protein; Region: Mem_trans; cl09117 340322008038 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 340322008039 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 340322008040 putative DNA binding site [nucleotide binding]; other site 340322008041 putative Zn2+ binding site [ion binding]; other site 340322008042 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 340322008043 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 340322008044 active site 340322008045 FMN binding site [chemical binding]; other site 340322008046 substrate binding site [chemical binding]; other site 340322008047 homotetramer interface [polypeptide binding]; other site 340322008048 catalytic residue [active] 340322008049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008050 NAD(P) binding site [chemical binding]; other site 340322008051 active site 340322008052 short chain dehydrogenase; Provisional; Region: PRK07825 340322008053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008054 NAD(P) binding site [chemical binding]; other site 340322008055 active site 340322008056 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 340322008057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 340322008058 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 340322008059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 340322008060 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; cl01383 340322008061 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 340322008062 Active site [active] 340322008063 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 340322008064 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 340322008065 active site 340322008066 dimer interface [polypeptide binding]; other site 340322008067 metal binding site [ion binding]; metal-binding site 340322008068 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 340322008069 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008070 putative substrate translocation pore; other site 340322008071 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008072 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322008073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322008074 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322008075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322008076 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322008077 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322008078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008079 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322008080 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 340322008081 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322008082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008083 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322008084 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340322008085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340322008086 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340322008087 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 340322008088 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340322008089 putative active site [active] 340322008090 putative metal binding site [ion binding]; other site 340322008091 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 340322008092 classical (c) SDRs; Region: SDR_c; cd05233 340322008093 NAD(P) binding site [chemical binding]; other site 340322008094 active site 340322008095 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 340322008096 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 340322008097 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 340322008098 benzoate transport; Region: 2A0115; TIGR00895 340322008099 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008100 putative substrate translocation pore; other site 340322008101 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008102 Transcriptional regulator [Transcription]; Region: IclR; COG1414 340322008103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 340322008104 Bacterial transcriptional regulator; Region: IclR; pfam01614 340322008105 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...; Region: metallo-dependent_hydrolases; cl00281 340322008106 proline/glycine betaine transporter; Provisional; Region: PRK10642 340322008107 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 340322008108 putative substrate translocation pore; other site 340322008109 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 340322008110 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 340322008111 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; cl14882 340322008112 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 340322008113 Uncharacterized conserved protein [Function unknown]; Region: COG3410 340322008114 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 340322008115 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...; Region: FhuD; cd01146 340322008116 siderophore binding site; other site 340322008117 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 340322008118 putative NAD(P) binding site [chemical binding]; other site 340322008119 putative dimer interface [polypeptide binding]; other site 340322008120 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 340322008121 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 340322008122 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 340322008123 substrate binding site [chemical binding]; other site 340322008124 dimer interface [polypeptide binding]; other site 340322008125 ATP binding site [chemical binding]; other site 340322008126 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 340322008127 AzlC protein; Region: AzlC; cl00570 340322008128 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 340322008129 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 340322008130 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 340322008131 active site 340322008132 NTP binding site [chemical binding]; other site 340322008133 metal binding triad [ion binding]; metal-binding site 340322008134 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 340322008135 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 340322008136 Zn2+ binding site [ion binding]; other site 340322008137 Mg2+ binding site [ion binding]; other site 340322008138 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 340322008139 active site 340322008140 Ap6A binding site [chemical binding]; other site 340322008141 nudix motif; other site 340322008142 metal binding site [ion binding]; metal-binding site 340322008143 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 340322008144 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 340322008145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340322008146 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...; Region: Sigma70_r4; cl01055 340322008147 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 340322008148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 340322008149 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 340322008150 catalytic residues [active] 340322008151 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 340322008152 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 340322008153 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 340322008154 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 340322008155 active site 340322008156 metal binding site [ion binding]; metal-binding site 340322008157 ParB-like partition proteins; Region: parB_part; TIGR00180 340322008158 ParB-like nuclease domain; Region: ParBc; cl02129 340322008159 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 340322008160 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...; Region: ParA; cd02042 340322008161 P-loop; other site 340322008162 Magnesium ion binding site [ion binding]; other site 340322008163 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...; Region: ParA; cd02042 340322008164 Magnesium ion binding site [ion binding]; other site 340322008165 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 340322008166 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; cl12011 340322008167 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 340322008168 Ribonuclease P; Region: Ribonuclease_P; cl00457 340322008169 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 340322008170 dimer interface [polypeptide binding]; other site 340322008171 ssDNA binding site [nucleotide binding]; other site 340322008172 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340322008173 A118 family; Region: A118_put_portal; TIGR01542 340322008174 Mu-like prophage protein [General function prediction only]; Region: COG3941; cl09192 340322008175 hypothetical protein; Provisional; Region: PRK11281 340322008176 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 340322008177 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 340322008178 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 340322008179 Walker A motif; other site 340322008180 ATP binding site [chemical binding]; other site 340322008181 Walker B motif; other site 340322008182 DNA binding loops [nucleotide binding]