-- dump date 20120504_160153 -- class Genbank::misc_feature -- table misc_feature_note -- id note 499229000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 499229000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 499229000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229000004 Walker A motif; other site 499229000005 ATP binding site [chemical binding]; other site 499229000006 Walker B motif; other site 499229000007 arginine finger; other site 499229000008 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 499229000009 DnaA box-binding interface [nucleotide binding]; other site 499229000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 499229000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 499229000012 putative DNA binding surface [nucleotide binding]; other site 499229000013 dimer interface [polypeptide binding]; other site 499229000014 beta-clamp/clamp loader binding surface; other site 499229000015 beta-clamp/translesion DNA polymerase binding surface; other site 499229000016 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 499229000017 RNA binding surface [nucleotide binding]; other site 499229000018 recombination protein F; Reviewed; Region: recF; PRK00064 499229000019 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 499229000020 Walker A/P-loop; other site 499229000021 ATP binding site [chemical binding]; other site 499229000022 Q-loop/lid; other site 499229000023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229000024 ABC transporter signature motif; other site 499229000025 Walker B; other site 499229000026 D-loop; other site 499229000027 H-loop/switch region; other site 499229000028 Protein of unknown function (DUF721); Region: DUF721; cl02324 499229000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 499229000030 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 499229000031 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 499229000032 anchoring element; other site 499229000033 dimer interface [polypeptide binding]; other site 499229000034 ATP binding site [chemical binding]; other site 499229000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 499229000036 active site 499229000037 putative metal-binding site [ion binding]; other site 499229000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 499229000039 DNA gyrase subunit A; Validated; Region: PRK05560 499229000040 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 DNA...; Region: TOP4c; cd00187 499229000041 CAP-like domain; other site 499229000042 active site 499229000043 primary dimer interface [polypeptide binding]; other site 499229000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 499229000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 499229000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 499229000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 499229000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 499229000049 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 499229000050 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 499229000051 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229000052 catalytic residue [active] 499229000053 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 499229000054 thymidylate kinase; Validated; Region: tmk; PRK00698 499229000055 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 499229000056 TMP-binding site; other site 499229000057 ATP-binding site [chemical binding]; other site 499229000058 Nitrogen regulatory protein P-II; Region: P-II; cl00412 499229000059 Protein of unknown function (DUF327); Region: DUF327; cl00753 499229000060 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 499229000061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229000062 PSP1 C-terminal conserved region; Region: PSP1; cl00770 499229000063 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 499229000064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000065 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 499229000066 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 499229000067 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229000068 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 499229000069 Walker A motif; other site 499229000070 ATP binding site [chemical binding]; other site 499229000071 Walker B motif; other site 499229000072 arginine finger; other site 499229000073 Helix-turn-helix domains; Region: HTH; cl00088 499229000074 FAD dependent oxidoreductase; Region: DAO; pfam01266 499229000075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000076 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 499229000077 dihydrodipicolinate synthase; Region: dapA; TIGR00674 499229000078 dimer interface [polypeptide binding]; other site 499229000079 active site 499229000080 catalytic residue [active] 499229000081 Sodium:solute symporter family; Region: SSF; cl00456 499229000082 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 499229000083 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 499229000084 S-adenosylmethionine binding site [chemical binding]; other site 499229000085 Predicted methyltransferases [General function prediction only]; Region: COG0313 499229000086 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 499229000087 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 499229000088 Helix-turn-helix domains; Region: HTH; cl00088 499229000089 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 499229000090 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 499229000091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229000092 Walker A/P-loop; other site 499229000093 ATP binding site [chemical binding]; other site 499229000094 Q-loop/lid; other site 499229000095 ABC transporter signature motif; other site 499229000096 Walker B; other site 499229000097 D-loop; other site 499229000098 H-loop/switch region; other site 499229000099 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 499229000100 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 499229000101 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, and...; Region: ABCC_Glucan_exporter_like; cd03254 499229000102 Walker A/P-loop; other site 499229000103 ATP binding site [chemical binding]; other site 499229000104 Q-loop/lid; other site 499229000105 ABC transporter signature motif; other site 499229000106 Walker B; other site 499229000107 D-loop; other site 499229000108 H-loop/switch region; other site 499229000109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000110 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 499229000111 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 499229000112 NurA domain; Region: NurA; cl09134 499229000113 HerA helicase [Replication, recombination, and repair]; Region: COG0433 499229000114 Domain of unknown function DUF87; Region: DUF87; pfam01935 499229000115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229000116 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 499229000117 non-specific DNA binding site [nucleotide binding]; other site 499229000118 salt bridge; other site 499229000119 sequence-specific DNA binding site [nucleotide binding]; other site 499229000120 Cupin domain; Region: Cupin_2; cl09118 499229000121 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 499229000122 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 499229000123 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 499229000124 active site 499229000125 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 499229000126 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 499229000127 peptide binding site [polypeptide binding]; other site 499229000128 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 499229000129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229000130 dimer interface [polypeptide binding]; other site 499229000131 conserved gate region; other site 499229000132 putative PBP binding loops; other site 499229000133 ABC-ATPase subunit interface; other site 499229000134 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 499229000135 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 499229000136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229000137 dimer interface [polypeptide binding]; other site 499229000138 conserved gate region; other site 499229000139 putative PBP binding loops; other site 499229000140 ABC-ATPase subunit interface; other site 499229000141 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 499229000142 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 499229000143 Walker A/P-loop; other site 499229000144 ATP binding site [chemical binding]; other site 499229000145 Q-loop/lid; other site 499229000146 ABC transporter signature motif; other site 499229000147 Walker B; other site 499229000148 D-loop; other site 499229000149 H-loop/switch region; other site 499229000150 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229000151 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 499229000152 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 499229000153 Walker A/P-loop; other site 499229000154 ATP binding site [chemical binding]; other site 499229000155 Q-loop/lid; other site 499229000156 ABC transporter signature motif; other site 499229000157 Walker B; other site 499229000158 D-loop; other site 499229000159 H-loop/switch region; other site 499229000160 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229000161 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 499229000162 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 499229000163 dimer interface [polypeptide binding]; other site 499229000164 active site 499229000165 glycine loop; other site 499229000166 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 499229000167 4Fe-4S binding domain; Region: Fer4; cl02805 499229000168 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 499229000169 FeS/SAM binding site; other site 499229000170 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 499229000171 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 499229000172 Glutamate binding site [chemical binding]; other site 499229000173 homodimer interface [polypeptide binding]; other site 499229000174 NAD binding site [chemical binding]; other site 499229000175 catalytic residues [active] 499229000176 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 499229000177 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 499229000178 non-specific DNA binding site [nucleotide binding]; other site 499229000179 salt bridge; other site 499229000180 sequence-specific DNA binding site [nucleotide binding]; other site 499229000181 Cupin domain; Region: Cupin_2; cl09118 499229000182 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 499229000183 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 499229000184 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 499229000185 catalytic residue [active] 499229000186 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 499229000187 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 499229000188 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 499229000189 active site 499229000190 P-loop; other site 499229000191 phosphorylation site [posttranslational modification] 499229000192 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229000193 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 499229000194 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 499229000195 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 499229000196 methionine cluster; other site 499229000197 active site 499229000198 phosphorylation site [posttranslational modification] 499229000199 metal binding site [ion binding]; metal-binding site 499229000200 Uncharacterized conserved protein [Function unknown]; Region: COG1284 499229000201 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 499229000202 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 499229000203 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 499229000204 Helix-turn-helix domains; Region: HTH; cl00088 499229000205 Helix-turn-helix domains; Region: HTH; cl00088 499229000206 PRD domain; Region: PRD; cl15445 499229000207 PRD domain; Region: PRD; cl15445 499229000208 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 499229000209 P-loop; other site 499229000210 active site 499229000211 phosphorylation site [posttranslational modification] 499229000212 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 499229000213 active site 499229000214 phosphorylation site [posttranslational modification] 499229000215 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 499229000216 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229000217 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 499229000218 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 499229000219 metal binding site [ion binding]; metal-binding site 499229000220 dimer interface [polypeptide binding]; other site 499229000221 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 499229000222 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 499229000223 putative metal binding site [ion binding]; other site 499229000224 dimer interface [polypeptide binding]; other site 499229000225 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 499229000226 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 499229000227 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229000228 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 499229000229 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 499229000230 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 499229000231 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 499229000232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000233 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 499229000234 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 499229000235 active site 499229000236 HIGH motif; other site 499229000237 KMSKS motif; other site 499229000238 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 499229000239 tRNA binding surface [nucleotide binding]; other site 499229000240 anticodon binding site; other site 499229000241 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 499229000242 dimer interface [polypeptide binding]; other site 499229000243 putative tRNA-binding site [nucleotide binding]; other site 499229000244 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 499229000245 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 499229000246 dimer interface [polypeptide binding]; other site 499229000247 PYR/PP interface [polypeptide binding]; other site 499229000248 TPP binding site [chemical binding]; other site 499229000249 substrate binding site [chemical binding]; other site 499229000250 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 499229000251 TPP-binding site; other site 499229000252 4Fe-4S binding domain; Region: Fer4; cl02805 499229000253 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 499229000254 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 499229000255 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 499229000256 active site 499229000257 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 499229000258 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 499229000259 FeS/SAM binding site; other site 499229000260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000261 Protein of unknown function (DUF458); Region: DUF458; cl00861 499229000262 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 499229000263 active site 499229000264 YabG peptidase U57; Region: Peptidase_U57; cl05250 499229000265 stage II sporulation protein D; Region: spore_II_D; TIGR02870 499229000266 Stage II sporulation protein; Region: SpoIID; pfam08486 499229000267 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 499229000268 active site 499229000269 metal binding site [ion binding]; metal-binding site 499229000270 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 499229000271 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 499229000272 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229000273 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229000274 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229000275 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229000276 putative peptidoglycan binding site; other site 499229000277 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 499229000278 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 499229000279 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 499229000280 Transcriptional regulators [Transcription]; Region: GntR; COG1802 499229000281 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229000282 DNA-binding site [nucleotide binding]; DNA binding site 499229000283 FCD domain; Region: FCD; cl11656 499229000284 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 499229000285 active site 499229000286 pur operon repressor; Provisional; Region: PRK09213 499229000287 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 499229000288 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229000289 active site 499229000290 SpoVG; Region: SpoVG; cl00915 499229000291 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 499229000292 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 499229000293 Substrate binding site; other site 499229000294 Mg++ binding site; other site 499229000295 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 499229000296 active site 499229000297 substrate binding site [chemical binding]; other site 499229000298 CoA binding site [chemical binding]; other site 499229000299 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 499229000300 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 499229000301 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229000302 active site 499229000303 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 499229000304 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 499229000305 5S rRNA interface [nucleotide binding]; other site 499229000306 CTC domain interface [polypeptide binding]; other site 499229000307 L16 interface [polypeptide binding]; other site 499229000308 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 499229000309 putative active site [active] 499229000310 catalytic residue [active] 499229000311 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 499229000312 GIY-YIG motif/motif A; other site 499229000313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000314 flavoprotein, HI0933 family; Region: TIGR00275 499229000315 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 499229000316 non-specific DNA binding site [nucleotide binding]; other site 499229000317 salt bridge; other site 499229000318 sequence-specific DNA binding site [nucleotide binding]; other site 499229000319 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 499229000320 salt bridge; other site 499229000321 non-specific DNA binding site [nucleotide binding]; other site 499229000322 sequence-specific DNA binding site [nucleotide binding]; other site 499229000323 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 499229000324 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 499229000325 non-specific DNA binding site [nucleotide binding]; other site 499229000326 salt bridge; other site 499229000327 sequence-specific DNA binding site [nucleotide binding]; other site 499229000328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 499229000329 Transposase; Region: DEDD_Tnp_IS110; pfam01548 499229000330 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 499229000331 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 499229000332 catalytic residues [active] 499229000333 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 499229000334 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 499229000335 metal binding site [ion binding]; metal-binding site 499229000336 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 499229000337 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 499229000338 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 499229000339 ABC-ATPase subunit interface; other site 499229000340 dimer interface [polypeptide binding]; other site 499229000341 putative PBP binding regions; other site 499229000342 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 499229000343 metal binding site 2 [ion binding]; metal-binding site 499229000344 putative DNA binding helix; other site 499229000345 metal binding site 1 [ion binding]; metal-binding site 499229000346 dimer interface [polypeptide binding]; other site 499229000347 structural Zn2+ binding site [ion binding]; other site 499229000348 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 499229000349 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 499229000350 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 499229000351 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 499229000352 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 499229000353 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 499229000354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229000355 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 499229000356 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5...; Region: Glm_B12_BD; cd02072 499229000357 B12 binding site [chemical binding]; other site 499229000358 heterodimer interface [polypeptide binding]; other site 499229000359 cobalt ligand [ion binding]; other site 499229000360 MutL protein; Region: MutL; pfam13941 499229000361 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 499229000362 substrate binding site [chemical binding]; other site 499229000363 B12 cofactor binding site [chemical binding]; other site 499229000364 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 499229000365 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 499229000366 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 499229000367 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 499229000368 dimer interface [polypeptide binding]; other site 499229000369 active site 499229000370 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 499229000371 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 499229000372 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 499229000373 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 DNA...; Region: TOP4c; cl00148 499229000374 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 499229000375 ATP-grasp domain; Region: ATP-grasp_4; cl03087 499229000376 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 499229000377 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 499229000378 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 499229000379 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 499229000380 CRISPR-associated protein; Region: TIGR03986 499229000381 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 499229000382 non-specific DNA binding site [nucleotide binding]; other site 499229000383 salt bridge; other site 499229000384 sequence-specific DNA binding site [nucleotide binding]; other site 499229000385 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 499229000386 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 499229000387 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 499229000388 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 499229000389 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 499229000390 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 499229000391 NAD(P) binding site [chemical binding]; other site 499229000392 catalytic residues [active] 499229000393 Uncharacterized conserved protein [Function unknown]; Region: COG1633 499229000394 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 499229000395 dinuclear metal binding motif [ion binding]; other site 499229000396 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 499229000397 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 499229000398 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 499229000399 DctM-like transporters; Region: DctM; pfam06808 499229000400 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229000401 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 499229000402 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 499229000403 MPT binding site; other site 499229000404 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 499229000405 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 499229000406 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229000407 Walker A motif; other site 499229000408 ATP binding site [chemical binding]; other site 499229000409 Walker B motif; other site 499229000410 arginine finger; other site 499229000411 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 499229000412 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 499229000413 oligomer interface [polypeptide binding]; other site 499229000414 putative active site [active] 499229000415 metal binding site [ion binding]; metal-binding site 499229000416 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 499229000417 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 499229000418 non-specific DNA binding site [nucleotide binding]; other site 499229000419 salt bridge; other site 499229000420 sequence-specific DNA binding site [nucleotide binding]; other site 499229000421 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 499229000422 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 499229000423 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 499229000424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229000425 catalytic residue [active] 499229000426 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 499229000427 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 499229000428 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; cl00243 499229000429 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 499229000430 RNA binding site [nucleotide binding]; other site 499229000431 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 499229000432 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 499229000433 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 499229000434 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229000435 catalytic residue [active] 499229000436 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 499229000437 DNA binding residues [nucleotide binding] 499229000438 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 499229000439 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 499229000440 active site 499229000441 catalytic residues [active] 499229000442 metal binding site [ion binding]; metal-binding site 499229000443 aconitate hydratase; Validated; Region: PRK07229 499229000444 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 499229000445 substrate binding site [chemical binding]; other site 499229000446 ligand binding site [chemical binding]; other site 499229000447 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 499229000448 substrate binding site [chemical binding]; other site 499229000449 tartrate dehydrogenase; Provisional; Region: PRK08194 499229000450 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 499229000451 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 499229000452 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 499229000453 RNA binding surface [nucleotide binding]; other site 499229000454 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 499229000455 putative acyl-acceptor binding pocket; other site 499229000456 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 499229000457 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; cd00016 499229000458 dimer interface [polypeptide binding]; other site 499229000459 active site 499229000460 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229000461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 499229000462 YheO-like PAS domain; Region: PAS_6; pfam08348 499229000463 Helix-turn-helix domains; Region: HTH; cl00088 499229000464 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 499229000465 homotrimer interaction site [polypeptide binding]; other site 499229000466 putative active site [active] 499229000467 threonine dehydratase; Provisional; Region: PRK08198 499229000468 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 499229000469 tetramer interface [polypeptide binding]; other site 499229000470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229000471 catalytic residue [active] 499229000472 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 499229000473 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 499229000474 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 499229000475 active site 499229000476 motif I; other site 499229000477 motif II; other site 499229000478 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 499229000479 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 499229000480 MatE; Region: MatE; cl10513 499229000481 MatE; Region: MatE; cl10513 499229000482 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 499229000483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000484 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 499229000485 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 499229000486 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 499229000487 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 499229000488 ATP binding site [chemical binding]; other site 499229000489 putative Mg++ binding site [ion binding]; other site 499229000490 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 499229000491 nucleotide binding region [chemical binding]; other site 499229000492 ATP-binding site [chemical binding]; other site 499229000493 TRCF domain; Region: TRCF; cl04088 499229000494 SurA N-terminal domain; Region: SurA_N_3; cl07813 499229000495 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 499229000496 PPIC-type PPIASE domain; Region: Rotamase; cl08278 499229000497 stage V sporulation protein T; Region: spore_V_T; TIGR02851 499229000498 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 499229000499 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_ATP; cd00484 499229000500 active site 499229000501 substrate-binding site [chemical binding]; other site 499229000502 metal-binding site [ion binding] 499229000503 ATP binding site [chemical binding]; other site 499229000504 stage V sporulation protein B; Region: spore_V_B; TIGR02900 499229000505 MatE; Region: MatE; cl10513 499229000506 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 499229000507 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 499229000508 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 499229000509 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 499229000510 IHF dimer interface [polypeptide binding]; other site 499229000511 IHF - DNA interface [nucleotide binding]; other site 499229000512 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 499229000513 Transposase; Region: DEDD_Tnp_IS110; pfam01548 499229000514 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 499229000515 Stage II sporulation protein; Region: SpoIID; pfam08486 499229000516 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 499229000517 YabP family; Region: YabP; cl06766 499229000518 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 499229000519 Septum formation initiator; Region: DivIC; cl11433 499229000520 hypothetical protein; Provisional; Region: PRK08582 499229000521 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 499229000522 RNA binding site [nucleotide binding]; other site 499229000523 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 499229000524 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 499229000525 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 499229000526 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 499229000527 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 499229000528 RPB1 interaction site [polypeptide binding]; other site 499229000529 RPB10 interaction site [polypeptide binding]; other site 499229000530 RPB11 interaction site [polypeptide binding]; other site 499229000531 RPB3 interaction site [polypeptide binding]; other site 499229000532 RPB12 interaction site [polypeptide binding]; other site 499229000533 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 499229000534 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 499229000535 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 499229000536 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 499229000537 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 499229000538 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 499229000539 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 499229000540 G-loop; other site 499229000541 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 499229000542 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 499229000543 DNA binding site [nucleotide binding] 499229000544 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 499229000545 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 499229000546 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 499229000547 S17 interaction site [polypeptide binding]; other site 499229000548 S8 interaction site; other site 499229000549 16S rRNA interaction site [nucleotide binding]; other site 499229000550 streptomycin interaction site [chemical binding]; other site 499229000551 23S rRNA interaction site [nucleotide binding]; other site 499229000552 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 499229000553 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 499229000554 elongation factor G; Reviewed; Region: PRK00007 499229000555 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 499229000556 G1 box; other site 499229000557 putative GEF interaction site [polypeptide binding]; other site 499229000558 GTP/Mg2+ binding site [chemical binding]; other site 499229000559 Switch I region; other site 499229000560 G2 box; other site 499229000561 G3 box; other site 499229000562 Switch II region; other site 499229000563 G4 box; other site 499229000564 G5 box; other site 499229000565 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 499229000566 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 499229000567 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 499229000568 elongation factor Tu; Reviewed; Region: PRK00049 499229000569 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 499229000570 G1 box; other site 499229000571 GEF interaction site [polypeptide binding]; other site 499229000572 GTP/Mg2+ binding site [chemical binding]; other site 499229000573 Switch I region; other site 499229000574 G2 box; other site 499229000575 G3 box; other site 499229000576 Switch II region; other site 499229000577 G4 box; other site 499229000578 G5 box; other site 499229000579 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 499229000580 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 499229000581 Antibiotic Binding Site [chemical binding]; other site 499229000582 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 499229000583 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 499229000584 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 499229000585 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 499229000586 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 499229000587 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 499229000588 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 499229000589 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 499229000590 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 499229000591 putative translocon binding site; other site 499229000592 protein-rRNA interface [nucleotide binding]; other site 499229000593 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 499229000594 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 499229000595 G-X-X-G motif; other site 499229000596 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 499229000597 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 499229000598 23S rRNA interface [nucleotide binding]; other site 499229000599 5S rRNA interface [nucleotide binding]; other site 499229000600 putative antibiotic binding site [chemical binding]; other site 499229000601 L25 interface [polypeptide binding]; other site 499229000602 L27 interface [polypeptide binding]; other site 499229000603 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 499229000604 23S rRNA interface [nucleotide binding]; other site 499229000605 putative translocon interaction site; other site 499229000606 signal recognition particle (SRP54) interaction site; other site 499229000607 L23 interface [polypeptide binding]; other site 499229000608 trigger factor interaction site; other site 499229000609 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 499229000610 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 499229000611 KOW motif; Region: KOW; cl00354 499229000612 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 499229000613 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 499229000614 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 499229000615 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 499229000616 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 499229000617 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 499229000618 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 499229000619 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 499229000620 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 499229000621 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 499229000622 5S rRNA interface [nucleotide binding]; other site 499229000623 L27 interface [polypeptide binding]; other site 499229000624 23S rRNA interface [nucleotide binding]; other site 499229000625 L5 interface [polypeptide binding]; other site 499229000626 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 499229000627 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 499229000628 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 499229000629 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 499229000630 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 499229000631 SecY translocase; Region: SecY; pfam00344 499229000632 adenylate kinase; Reviewed; Region: adk; PRK00279 499229000633 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 499229000634 AMP-binding site [chemical binding]; other site 499229000635 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 499229000636 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 499229000637 active site 499229000638 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 499229000639 rRNA binding site [nucleotide binding]; other site 499229000640 predicted 30S ribosome binding site; other site 499229000641 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 499229000642 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 499229000643 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 499229000644 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 499229000645 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 499229000646 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 499229000647 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 499229000648 RNA binding surface [nucleotide binding]; other site 499229000649 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 499229000650 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 499229000651 alphaNTD - beta interaction site [polypeptide binding]; other site 499229000652 alphaNTD homodimer interface [polypeptide binding]; other site 499229000653 alphaNTD - beta' interaction site [polypeptide binding]; other site 499229000654 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 499229000655 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 499229000656 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 499229000657 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 499229000658 Walker A/P-loop; other site 499229000659 ATP binding site [chemical binding]; other site 499229000660 Q-loop/lid; other site 499229000661 ABC transporter signature motif; other site 499229000662 Walker B; other site 499229000663 D-loop; other site 499229000664 H-loop/switch region; other site 499229000665 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 499229000666 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 499229000667 Walker A/P-loop; other site 499229000668 ATP binding site [chemical binding]; other site 499229000669 Q-loop/lid; other site 499229000670 ABC transporter signature motif; other site 499229000671 Walker B; other site 499229000672 D-loop; other site 499229000673 H-loop/switch region; other site 499229000674 Cobalt transport protein; Region: CbiQ; cl00463 499229000675 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 499229000676 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 499229000677 dimerization interface 3.5A [polypeptide binding]; other site 499229000678 active site 499229000679 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 499229000680 23S rRNA interface [nucleotide binding]; other site 499229000681 L3 interface [polypeptide binding]; other site 499229000682 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 499229000683 biotin synthase; Provisional; Region: PRK07094 499229000684 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 499229000685 FeS/SAM binding site; other site 499229000686 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 499229000687 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 499229000688 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 499229000689 G1 box; other site 499229000690 GTP/Mg2+ binding site [chemical binding]; other site 499229000691 Switch I region; other site 499229000692 G2 box; other site 499229000693 Switch II region; other site 499229000694 G3 box; other site 499229000695 G4 box; other site 499229000696 G5 box; other site 499229000697 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 499229000698 MatE; Region: MatE; cl10513 499229000699 MatE; Region: MatE; cl10513 499229000700 EamA-like transporter family; Region: EamA; cl01037 499229000701 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 499229000702 EamA-like transporter family; Region: EamA; cl01037 499229000703 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 499229000704 ATP binding site [chemical binding]; other site 499229000705 active site 499229000706 substrate binding site [chemical binding]; other site 499229000707 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 499229000708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000709 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229000710 ornithine carbamoyltransferase; Provisional; Region: PRK00779 499229000711 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 499229000712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000713 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 499229000714 active site 499229000715 nucleophile elbow; other site 499229000716 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 499229000717 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 499229000718 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 499229000719 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 499229000720 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 499229000721 dimer interface [polypeptide binding]; other site 499229000722 putative anticodon binding site; other site 499229000723 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 499229000724 motif 1; other site 499229000725 active site 499229000726 motif 2; other site 499229000727 motif 3; other site 499229000728 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 499229000729 Helix-turn-helix domains; Region: HTH; cl00088 499229000730 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 499229000731 active site 499229000732 Ap6A binding site [chemical binding]; other site 499229000733 nudix motif; other site 499229000734 metal binding site [ion binding]; metal-binding site 499229000735 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 499229000736 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 499229000737 dimerization interface [polypeptide binding]; other site 499229000738 putative ATP binding site [chemical binding]; other site 499229000739 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 499229000740 seryl-tRNA synthetase; Provisional; Region: PRK05431 499229000741 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 499229000742 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 bound...; Region: SerRS_core; cd00770 499229000743 dimer interface [polypeptide binding]; other site 499229000744 active site 499229000745 motif 1; other site 499229000746 motif 2; other site 499229000747 motif 3; other site 499229000748 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 499229000749 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 499229000750 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 499229000751 4Fe-4S binding domain; Region: Fer4; cl02805 499229000752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229000753 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 499229000754 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 499229000755 switch II; other site 499229000756 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229000757 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 499229000758 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 499229000759 Walker A motif; other site 499229000760 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 499229000761 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 499229000762 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 499229000763 Helix-turn-helix domains; Region: HTH; cl00088 499229000764 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 499229000765 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 499229000766 G1 box; other site 499229000767 GTP/Mg2+ binding site [chemical binding]; other site 499229000768 Switch I region; other site 499229000769 G2 box; other site 499229000770 G3 box; other site 499229000771 Switch II region; other site 499229000772 G4 box; other site 499229000773 G5 box; other site 499229000774 Nucleoside recognition; Region: Gate; cl00486 499229000775 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 499229000776 Nucleoside recognition; Region: Gate; cl00486 499229000777 FeoA domain; Region: FeoA; cl00838 499229000778 FeoA domain; Region: FeoA; cl00838 499229000779 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 499229000780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229000781 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 499229000782 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 499229000783 active site residue [active] 499229000784 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 499229000785 CPxP motif; other site 499229000786 DsrE/DsrF-like family; Region: DrsE; cl00672 499229000787 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 499229000788 dimerization interface [polypeptide binding]; other site 499229000789 putative DNA binding site [nucleotide binding]; other site 499229000790 putative Zn2+ binding site [ion binding]; other site 499229000791 WYL domain; Region: WYL; cl14852 499229000792 S-layer homology domain; Region: SLH; pfam00395 499229000793 S-layer homology domain; Region: SLH; pfam00395 499229000794 S-layer homology domain; Region: SLH; pfam00395 499229000795 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 499229000796 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 499229000797 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 499229000798 non-specific DNA binding site [nucleotide binding]; other site 499229000799 salt bridge; other site 499229000800 sequence-specific DNA binding site [nucleotide binding]; other site 499229000801 hypothetical protein; Provisional; Region: PRK08185 499229000802 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 499229000803 intersubunit interface [polypeptide binding]; other site 499229000804 active site 499229000805 zinc binding site [ion binding]; other site 499229000806 Na+ binding site [ion binding]; other site 499229000807 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229000808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000809 NAD(P) binding site [chemical binding]; other site 499229000810 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 499229000811 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 499229000812 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 499229000813 active site 499229000814 phosphorylation site [posttranslational modification] 499229000815 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229000816 active pocket/dimerization site; other site 499229000817 active site 499229000818 phosphorylation site [posttranslational modification] 499229000819 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 499229000820 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229000821 DNA binding residues [nucleotide binding] 499229000822 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 499229000823 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 499229000824 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 499229000825 ATP binding site [chemical binding]; other site 499229000826 Mg++ binding site [ion binding]; other site 499229000827 motif III; other site 499229000828 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 499229000829 nucleotide binding region [chemical binding]; other site 499229000830 ATP-binding site [chemical binding]; other site 499229000831 DbpA RNA binding domain; Region: DbpA; pfam03880 499229000832 Rhomboid family; Region: Rhomboid; cl11446 499229000833 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 499229000834 diiron binding motif [ion binding]; other site 499229000835 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 499229000836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000837 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 499229000838 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 499229000839 DNA binding residues [nucleotide binding] 499229000840 drug binding residues [chemical binding]; other site 499229000841 dimer interface [polypeptide binding]; other site 499229000842 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 499229000843 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 499229000844 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 499229000845 active site 499229000846 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 499229000847 Helix-turn-helix domains; Region: HTH; cl00088 499229000848 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 499229000849 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229000850 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229000851 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 499229000852 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 499229000853 S-layer homology domain; Region: SLH; pfam00395 499229000854 S-layer homology domain; Region: SLH; pfam00395 499229000855 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 499229000856 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 499229000857 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 499229000858 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 499229000859 Major Facilitator Superfamily; Region: MFS_1; pfam07690 499229000860 putative substrate translocation pore; other site 499229000861 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 499229000862 B12 binding site [chemical binding]; other site 499229000863 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 499229000864 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 499229000865 MFS/sugar transport protein; Region: MFS_2; pfam13347 499229000866 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 499229000867 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 499229000868 B12 binding site [chemical binding]; other site 499229000869 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 499229000870 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 499229000871 MFS/sugar transport protein; Region: MFS_2; pfam13347 499229000872 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 499229000873 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 499229000874 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 499229000875 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 499229000876 B12 binding site [chemical binding]; other site 499229000877 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 499229000878 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 499229000879 substrate binding pocket [chemical binding]; other site 499229000880 dimer interface [polypeptide binding]; other site 499229000881 inhibitor binding site; inhibition site 499229000882 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 499229000883 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 499229000884 Potassium binding sites [ion binding]; other site 499229000885 Cesium cation binding sites [ion binding]; other site 499229000886 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 499229000887 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 499229000888 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 499229000889 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 499229000890 homodimer interface [polypeptide binding]; other site 499229000891 NADP binding site [chemical binding]; other site 499229000892 substrate binding site [chemical binding]; other site 499229000893 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 499229000894 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 499229000895 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 499229000896 FAD binding site [chemical binding]; other site 499229000897 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 499229000898 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229000899 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229000900 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 499229000901 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 499229000902 lipoyl attachment site [posttranslational modification]; other site 499229000903 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 499229000904 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 499229000905 B12 binding site [chemical binding]; other site 499229000906 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 499229000907 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229000908 DNA-binding site [nucleotide binding]; DNA binding site 499229000909 UTRA domain; Region: UTRA; cl01230 499229000910 S-layer homology domain; Region: SLH; pfam00395 499229000911 S-layer homology domain; Region: SLH; pfam00395 499229000912 S-layer homology domain; Region: SLH; pfam00395 499229000913 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 499229000914 active site 499229000915 catalytic residues [active] 499229000916 Response regulator receiver domain; Region: Response_reg; pfam00072 499229000917 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 499229000918 active site 499229000919 phosphorylation site [posttranslational modification] 499229000920 intermolecular recognition site; other site 499229000921 dimerization interface [polypeptide binding]; other site 499229000922 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 499229000923 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229000924 dimer interface [polypeptide binding]; other site 499229000925 phosphorylation site [posttranslational modification] 499229000926 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 499229000927 ATP binding site [chemical binding]; other site 499229000928 G-X-G motif; other site 499229000929 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 499229000930 transcription termination factor Rho; Provisional; Region: rho; PRK09376 499229000931 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 499229000932 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 499229000933 RNA binding site [nucleotide binding]; other site 499229000934 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 499229000935 multimer interface [polypeptide binding]; other site 499229000936 Walker A motif; other site 499229000937 ATP binding site [chemical binding]; other site 499229000938 Walker B motif; other site 499229000939 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 499229000940 Nucleoside recognition; Region: Gate; cl00486 499229000941 Nucleoside recognition; Region: Gate; cl00486 499229000942 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 499229000943 NodB motif; other site 499229000944 active site 499229000945 catalytic site [active] 499229000946 metal binding site [ion binding]; metal-binding site 499229000947 Uncharacterized conserved protein [Function unknown]; Region: COG1624 499229000948 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 499229000949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 499229000950 YbbR-like protein; Region: YbbR; pfam07949 499229000951 YbbR-like protein; Region: YbbR; pfam07949 499229000952 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 499229000953 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 499229000954 active site 499229000955 substrate binding site [chemical binding]; other site 499229000956 metal binding site [ion binding]; metal-binding site 499229000957 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 499229000958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000959 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; cl15357 499229000960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229000961 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; cl15357 499229000962 Cation transport protein; Region: TrkH; cl10514 499229000963 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 499229000964 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 499229000965 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 499229000966 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 499229000967 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 499229000968 S-adenosylmethionine binding site [chemical binding]; other site 499229000969 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 499229000970 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 499229000971 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 499229000972 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 499229000973 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_21; cd08520 499229000974 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 499229000975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229000976 dimer interface [polypeptide binding]; other site 499229000977 conserved gate region; other site 499229000978 putative PBP binding loops; other site 499229000979 ABC-ATPase subunit interface; other site 499229000980 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 499229000981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229000982 dimer interface [polypeptide binding]; other site 499229000983 conserved gate region; other site 499229000984 putative PBP binding loops; other site 499229000985 ABC-ATPase subunit interface; other site 499229000986 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 499229000987 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 499229000988 Walker A/P-loop; other site 499229000989 ATP binding site [chemical binding]; other site 499229000990 Q-loop/lid; other site 499229000991 ABC transporter signature motif; other site 499229000992 Walker B; other site 499229000993 D-loop; other site 499229000994 H-loop/switch region; other site 499229000995 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229000996 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 499229000997 Walker A/P-loop; other site 499229000998 ATP binding site [chemical binding]; other site 499229000999 Q-loop/lid; other site 499229001000 ABC transporter signature motif; other site 499229001001 Walker B; other site 499229001002 D-loop; other site 499229001003 H-loop/switch region; other site 499229001004 Protein of unknown function (DUF401); Region: DUF401; cl00830 499229001005 Sporulation and spore germination; Region: Germane; cl11253 499229001006 Sporulation and spore germination; Region: Germane; cl11253 499229001007 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 499229001008 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229001009 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 499229001010 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 499229001011 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 499229001012 metal-binding site [ion binding] 499229001013 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 499229001014 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 499229001015 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 499229001016 putative deacylase active site [active] 499229001017 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 499229001018 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 499229001019 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 499229001020 intersubunit interface [polypeptide binding]; other site 499229001021 active site 499229001022 catalytic residue [active] 499229001023 Uncharacterized conserved protein [Function unknown]; Region: COG1751 499229001024 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 499229001025 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 499229001026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001027 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 499229001028 MatE; Region: MatE; cl10513 499229001029 MatE; Region: MatE; cl10513 499229001030 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 499229001031 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 499229001032 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 499229001033 lipoyl attachment site [posttranslational modification]; other site 499229001034 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 499229001035 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 499229001036 tetramer interface [polypeptide binding]; other site 499229001037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229001038 catalytic residue [active] 499229001039 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 499229001040 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 499229001041 tetramer interface [polypeptide binding]; other site 499229001042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229001043 catalytic residue [active] 499229001044 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229001045 putative peptidoglycan binding site; other site 499229001046 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229001047 putative peptidoglycan binding site; other site 499229001048 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 499229001049 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229001050 putative peptidoglycan binding site; other site 499229001051 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 499229001052 phosphodiesterase; Provisional; Region: PRK12704 499229001053 Sugar fermentation stimulation protein; Region: SfsA; cl00647 499229001054 Transcriptional regulator [Transcription]; Region: IclR; COG1414 499229001055 Helix-turn-helix domains; Region: HTH; cl00088 499229001056 Bacterial transcriptional regulator; Region: IclR; pfam01614 499229001057 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 499229001058 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 499229001059 putative active site [active] 499229001060 metal binding site [ion binding]; metal-binding site 499229001061 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 499229001062 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 499229001063 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 499229001064 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 499229001065 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229001066 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229001067 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 499229001068 Rubredoxin; Region: Rubredoxin; pfam00301 499229001069 iron binding site [ion binding]; other site 499229001070 Rubredoxin [Energy production and conversion]; Region: COG1773 499229001071 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 499229001072 iron binding site [ion binding]; other site 499229001073 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 499229001074 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 499229001075 ATP-grasp domain; Region: ATP-grasp_4; cl03087 499229001076 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229001077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001078 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 499229001079 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 499229001080 B12 binding site [chemical binding]; other site 499229001081 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 499229001082 CoenzymeA binding site [chemical binding]; other site 499229001083 subunit interaction site [polypeptide binding]; other site 499229001084 PHB binding site; other site 499229001085 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 499229001086 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 499229001087 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229001088 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 499229001089 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 499229001090 active site 499229001091 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 499229001092 Asp23 family; Region: Asp23; cl00574 499229001093 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 499229001094 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 499229001095 FAD binding pocket [chemical binding]; other site 499229001096 FAD binding motif [chemical binding]; other site 499229001097 phosphate binding motif [ion binding]; other site 499229001098 beta-alpha-beta structure motif; other site 499229001099 NAD binding pocket [chemical binding]; other site 499229001100 Iron coordination center [ion binding]; other site 499229001101 putative oxidoreductase; Provisional; Region: PRK12831 499229001102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001103 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 499229001104 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 499229001105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 499229001106 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 499229001107 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229001108 AIR carboxylase; Region: AIRC; cl00310 499229001109 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 499229001110 ATP-grasp domain; Region: ATP-grasp_4; cl03087 499229001111 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 499229001112 alanine racemase; Reviewed; Region: alr; PRK00053 499229001113 active site 499229001114 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 499229001115 dimer interface [polypeptide binding]; other site 499229001116 substrate binding site [chemical binding]; other site 499229001117 catalytic residues [active] 499229001118 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 499229001119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001120 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 499229001121 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 499229001122 phosphopeptide binding site; other site 499229001123 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 499229001124 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 499229001125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 499229001126 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 499229001127 EamA-like transporter family; Region: EamA; cl01037 499229001128 EamA-like transporter family; Region: EamA; cl01037 499229001129 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 499229001130 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 499229001131 Walker A/P-loop; other site 499229001132 ATP binding site [chemical binding]; other site 499229001133 Q-loop/lid; other site 499229001134 ABC transporter signature motif; other site 499229001135 Walker B; other site 499229001136 D-loop; other site 499229001137 H-loop/switch region; other site 499229001138 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 499229001139 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 499229001140 Walker A/P-loop; other site 499229001141 ATP binding site [chemical binding]; other site 499229001142 Q-loop/lid; other site 499229001143 ABC transporter signature motif; other site 499229001144 Walker B; other site 499229001145 D-loop; other site 499229001146 H-loop/switch region; other site 499229001147 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 499229001148 TM-ABC transporter signature motif; other site 499229001149 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 499229001150 TM-ABC transporter signature motif; other site 499229001151 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 499229001152 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 499229001153 putative ligand binding site [chemical binding]; other site 499229001154 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 499229001155 oligomerisation interface [polypeptide binding]; other site 499229001156 mobile loop; other site 499229001157 roof hairpin; other site 499229001158 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 499229001159 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 499229001160 ring oligomerisation interface [polypeptide binding]; other site 499229001161 ATP/Mg binding site [chemical binding]; other site 499229001162 stacking interactions; other site 499229001163 hinge regions; other site 499229001164 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 499229001165 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 499229001166 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229001167 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 499229001168 putative active site [active] 499229001169 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 499229001170 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 499229001171 Ligand Binding Site [chemical binding]; other site 499229001172 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 499229001173 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229001174 Walker A motif; other site 499229001175 ATP binding site [chemical binding]; other site 499229001176 Walker B motif; other site 499229001177 arginine finger; other site 499229001178 Helix-turn-helix domains; Region: HTH; cl00088 499229001179 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 499229001180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001181 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 499229001182 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 499229001183 substrate binding site [chemical binding]; other site 499229001184 ligand binding site [chemical binding]; other site 499229001185 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 499229001186 substrate binding site [chemical binding]; other site 499229001187 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cl02025 499229001188 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 499229001189 B12 binding site [chemical binding]; other site 499229001190 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 499229001191 PrpF protein; Region: PrpF; pfam04303 499229001192 MutL protein; Region: MutL; pfam13941 499229001193 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 499229001194 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 499229001195 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 499229001196 tetramer interface [polypeptide binding]; other site 499229001197 active site 499229001198 Mg2+/Mn2+ binding site [ion binding]; other site 499229001199 Sodium:solute symporter family; Region: SSF; cl00456 499229001200 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 499229001201 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229001202 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 499229001203 active site 499229001204 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229001205 Amino acid synthesis; Region: AA_synth; pfam06684 499229001206 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 499229001207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001208 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 499229001209 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229001210 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 499229001211 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 499229001212 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 499229001213 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 499229001214 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 499229001215 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 499229001216 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 499229001217 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 499229001218 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 499229001219 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229001220 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 499229001221 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 499229001222 active site 499229001223 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229001224 4Fe-4S binding domain; Region: Fer4; cl02805 499229001225 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 499229001226 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 499229001227 ApbE family; Region: ApbE; cl00643 499229001228 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 499229001229 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 499229001230 Ligand binding site; other site 499229001231 metal-binding site 499229001232 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 499229001233 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 499229001234 XdhC Rossmann domain; Region: XdhC_C; pfam13478 499229001235 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 499229001236 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 499229001237 Helix-turn-helix domains; Region: HTH; cl00088 499229001238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001239 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 499229001240 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 499229001241 ABC-ATPase subunit interface; other site 499229001242 dimer interface [polypeptide binding]; other site 499229001243 putative PBP binding regions; other site 499229001244 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 499229001245 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 499229001246 Walker A/P-loop; other site 499229001247 ATP binding site [chemical binding]; other site 499229001248 Q-loop/lid; other site 499229001249 ABC transporter signature motif; other site 499229001250 Walker B; other site 499229001251 D-loop; other site 499229001252 H-loop/switch region; other site 499229001253 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 499229001254 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 499229001255 putative ligand binding residues [chemical binding]; other site 499229001256 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 499229001257 selenophosphate synthetase; Provisional; Region: PRK00943 499229001258 dimerization interface [polypeptide binding]; other site 499229001259 putative ATP binding site [chemical binding]; other site 499229001260 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 499229001261 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 499229001262 CPxP motif; other site 499229001263 DsrE/DsrF-like family; Region: DrsE; cl00672 499229001264 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 499229001265 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 499229001266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229001267 catalytic residue [active] 499229001268 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 499229001269 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 499229001270 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 499229001271 Helix-turn-helix domains; Region: HTH; cl00088 499229001272 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 499229001273 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 499229001274 intersubunit interface [polypeptide binding]; other site 499229001275 active site 499229001276 Zn2+ binding site [ion binding]; other site 499229001277 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 499229001278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001279 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 499229001280 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 499229001281 Metal-binding active site; metal-binding site 499229001282 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229001283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001284 NAD(P) binding site [chemical binding]; other site 499229001285 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 499229001286 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 499229001287 homodimer interface [polypeptide binding]; other site 499229001288 substrate-cofactor binding pocket; other site 499229001289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229001290 catalytic residue [active] 499229001291 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 499229001292 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 499229001293 putative N- and C-terminal domain interface [polypeptide binding]; other site 499229001294 putative active site [active] 499229001295 putative MgATP binding site [chemical binding]; other site 499229001296 catalytic site [active] 499229001297 metal binding site [ion binding]; metal-binding site 499229001298 putative xylulose binding site [chemical binding]; other site 499229001299 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 499229001300 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229001301 dimer interface [polypeptide binding]; other site 499229001302 conserved gate region; other site 499229001303 putative PBP binding loops; other site 499229001304 ABC-ATPase subunit interface; other site 499229001305 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 499229001306 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229001307 dimer interface [polypeptide binding]; other site 499229001308 conserved gate region; other site 499229001309 putative PBP binding loops; other site 499229001310 ABC-ATPase subunit interface; other site 499229001311 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 499229001312 peptide binding site [polypeptide binding]; other site 499229001313 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 499229001314 dimer interface [polypeptide binding]; other site 499229001315 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 499229001316 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 499229001317 Walker A/P-loop; other site 499229001318 ATP binding site [chemical binding]; other site 499229001319 Q-loop/lid; other site 499229001320 ABC transporter signature motif; other site 499229001321 Walker B; other site 499229001322 D-loop; other site 499229001323 H-loop/switch region; other site 499229001324 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229001325 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 499229001326 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 499229001327 Walker A/P-loop; other site 499229001328 ATP binding site [chemical binding]; other site 499229001329 Q-loop/lid; other site 499229001330 ABC transporter signature motif; other site 499229001331 Walker B; other site 499229001332 D-loop; other site 499229001333 H-loop/switch region; other site 499229001334 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229001335 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 499229001336 dipeptidase PepV; Reviewed; Region: PRK07318 499229001337 active site 499229001338 metal binding site [ion binding]; metal-binding site 499229001339 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 499229001340 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 499229001341 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 499229001342 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 499229001343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001344 Walker B; other site 499229001345 D-loop; other site 499229001346 H-loop/switch region; other site 499229001347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001348 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 499229001349 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 499229001350 catalytic triad [active] 499229001351 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 499229001352 putative active site [active] 499229001353 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 499229001354 Precorrin-8X methylmutase; Region: CbiC; pfam02570 499229001355 CbiD; Region: CbiD; cl00828 499229001356 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 499229001357 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 499229001358 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 499229001359 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 499229001360 S-adenosylmethionine binding site [chemical binding]; other site 499229001361 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 499229001362 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 499229001363 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 499229001364 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 499229001365 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 499229001366 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 499229001367 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 499229001368 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 499229001369 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 499229001370 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 499229001371 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 499229001372 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 499229001373 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 499229001374 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 499229001375 tRNA; other site 499229001376 putative tRNA binding site [nucleotide binding]; other site 499229001377 putative NADP binding site [chemical binding]; other site 499229001378 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 499229001379 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 499229001380 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 499229001381 domain interfaces; other site 499229001382 active site 499229001383 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 499229001384 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 499229001385 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 499229001386 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 499229001387 active site 499229001388 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 499229001389 dimer interface [polypeptide binding]; other site 499229001390 active site 499229001391 Schiff base residues; other site 499229001392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001393 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 499229001394 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 499229001395 inhibitor-cofactor binding pocket; inhibition site 499229001396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229001397 catalytic residue [active] 499229001398 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 499229001399 active site 499229001400 trimer interface [polypeptide binding]; other site 499229001401 allosteric site; other site 499229001402 active site lid [active] 499229001403 hexamer (dimer of trimers) interface [polypeptide binding]; other site 499229001404 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 499229001405 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 499229001406 active site 499229001407 dimer interface [polypeptide binding]; other site 499229001408 CutC family; Region: CutC; cl01218 499229001409 SurA N-terminal domain; Region: SurA_N_3; cl07813 499229001410 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 499229001411 PPIC-type PPIASE domain; Region: Rotamase; cl08278 499229001412 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 499229001413 active site 499229001414 catalytic triad [active] 499229001415 oxyanion hole [active] 499229001416 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 499229001417 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 499229001418 active site 499229001419 phosphorylation site [posttranslational modification] 499229001420 intermolecular recognition site; other site 499229001421 dimerization interface [polypeptide binding]; other site 499229001422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 499229001423 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 499229001424 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 499229001425 Histidine kinase; Region: His_kinase; pfam06580 499229001426 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 499229001427 ATP binding site [chemical binding]; other site 499229001428 Mg2+ binding site [ion binding]; other site 499229001429 G-X-G motif; other site 499229001430 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 499229001431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001432 Walker A/P-loop; other site 499229001433 ATP binding site [chemical binding]; other site 499229001434 Q-loop/lid; other site 499229001435 ABC transporter signature motif; other site 499229001436 Walker B; other site 499229001437 D-loop; other site 499229001438 H-loop/switch region; other site 499229001439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001440 Walker A/P-loop; other site 499229001441 ATP binding site [chemical binding]; other site 499229001442 Q-loop/lid; other site 499229001443 ABC transporter signature motif; other site 499229001444 Walker B; other site 499229001445 D-loop; other site 499229001446 H-loop/switch region; other site 499229001447 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 499229001448 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 499229001449 Walker A/P-loop; other site 499229001450 ATP binding site [chemical binding]; other site 499229001451 Q-loop/lid; other site 499229001452 ABC transporter signature motif; other site 499229001453 Walker B; other site 499229001454 D-loop; other site 499229001455 H-loop/switch region; other site 499229001456 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 499229001457 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 499229001458 TM-ABC transporter signature motif; other site 499229001459 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 499229001460 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 499229001461 putative ligand binding site [chemical binding]; other site 499229001462 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 499229001463 active site 499229001464 ADP/pyrophosphate binding site [chemical binding]; other site 499229001465 dimerization interface [polypeptide binding]; other site 499229001466 allosteric effector site; other site 499229001467 fructose-1,6-bisphosphate binding site; other site 499229001468 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 499229001469 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 499229001470 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 499229001471 putative dimer interface [polypeptide binding]; other site 499229001472 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 499229001473 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 499229001474 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 499229001475 putative substrate binding site [chemical binding]; other site 499229001476 putative ATP binding site [chemical binding]; other site 499229001477 alanine racemase; Reviewed; Region: alr; PRK00053 499229001478 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 499229001479 active site 499229001480 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 499229001481 dimer interface [polypeptide binding]; other site 499229001482 substrate binding site [chemical binding]; other site 499229001483 catalytic residues [active] 499229001484 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 499229001485 PemK-like protein; Region: PemK; cl00995 499229001486 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229001487 Zn2+ binding site [ion binding]; other site 499229001488 Mg2+ binding site [ion binding]; other site 499229001489 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229001490 Zn2+ binding site [ion binding]; other site 499229001491 Mg2+ binding site [ion binding]; other site 499229001492 Peptidase C26; Region: Peptidase_C26; pfam07722 499229001493 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 499229001494 catalytic triad [active] 499229001495 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 499229001496 SxDxEG motif; other site 499229001497 active site 499229001498 metal binding site [ion binding]; metal-binding site 499229001499 homopentamer interface [polypeptide binding]; other site 499229001500 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 499229001501 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 499229001502 active site 499229001503 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 499229001504 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 499229001505 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 499229001506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 499229001507 Coenzyme A binding pocket [chemical binding]; other site 499229001508 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 499229001509 trimer interface [polypeptide binding]; other site 499229001510 active site 499229001511 substrate binding site [chemical binding]; other site 499229001512 CoA binding site [chemical binding]; other site 499229001513 UGMP family protein; Validated; Region: PRK09604 499229001514 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 499229001515 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 499229001516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001517 Walker A/P-loop; other site 499229001518 ATP binding site [chemical binding]; other site 499229001519 Q-loop/lid; other site 499229001520 ABC transporter signature motif; other site 499229001521 Walker B; other site 499229001522 D-loop; other site 499229001523 H-loop/switch region; other site 499229001524 ABC transporter; Region: ABC_tran_2; pfam12848 499229001525 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 facilitated...; Region: ABCF_EF-3; cd03221 499229001526 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 499229001527 Fumarase C-terminus; Region: Fumerase_C; cl00795 499229001528 Malic enzyme, N-terminal domain; Region: malic; pfam00390 499229001529 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 499229001530 putative NAD(P) binding site [chemical binding]; other site 499229001531 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 499229001532 EamA-like transporter family; Region: EamA; cl01037 499229001533 EamA-like transporter family; Region: EamA; cl01037 499229001534 S-layer homology domain; Region: SLH; pfam00395 499229001535 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 499229001536 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 499229001537 MgtC family; Region: MgtC; pfam02308 499229001538 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 499229001539 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 499229001540 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 499229001541 putative mechanosensitive channel protein; Provisional; Region: PRK10929 499229001542 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 499229001543 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 499229001544 V-type ATP synthase subunit I; Validated; Region: PRK05771 499229001545 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 499229001546 Plant ATP synthase F0; Region: YMF19; cl07975 499229001547 V-type ATP synthase subunit A; Provisional; Region: PRK04192 499229001548 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 499229001549 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 499229001550 Walker A motif/ATP binding site; other site 499229001551 Walker B motif; other site 499229001552 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 499229001553 V-type ATP synthase subunit B; Provisional; Region: PRK04196 499229001554 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 499229001555 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 499229001556 Walker A motif homologous position; other site 499229001557 Walker B motif; other site 499229001558 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 499229001559 ATP synthase subunit D; Region: ATP-synt_D; cl00613 499229001560 Propionate catabolism activator; Region: PrpR_N; pfam06506 499229001561 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 499229001562 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229001563 Walker A motif; other site 499229001564 ATP binding site [chemical binding]; other site 499229001565 Walker B motif; other site 499229001566 arginine finger; other site 499229001567 Helix-turn-helix domains; Region: HTH; cl00088 499229001568 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 499229001569 Fumarase C-terminus; Region: Fumerase_C; cl00795 499229001570 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 499229001571 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 499229001572 HsdM N-terminal domain; Region: HsdM_N; pfam12161 499229001573 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 499229001574 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 499229001575 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 499229001576 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 499229001577 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 499229001578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001580 TIGR02687 family protein; Region: TIGR02687 499229001581 PglZ domain; Region: PglZ; pfam08665 499229001582 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 499229001583 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 499229001584 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 499229001585 Uncharacterized conserved protein [Function unknown]; Region: COG2006 499229001586 Domain of unknown function (DUF362); Region: DUF362; pfam04015 499229001587 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 499229001588 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 499229001589 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229001590 active site 499229001591 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 499229001592 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 499229001593 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 499229001594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001595 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 499229001596 4Fe-4S binding domain; Region: Fer4; cl02805 499229001597 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 499229001598 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 499229001599 ACS interaction site; other site 499229001600 CODH interaction site; other site 499229001601 cubane metal cluster (B-cluster) [ion binding]; other site 499229001602 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 499229001603 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 499229001604 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 499229001605 P-loop; other site 499229001606 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001607 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 499229001608 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 499229001609 Potassium binding sites [ion binding]; other site 499229001610 Cesium cation binding sites [ion binding]; other site 499229001611 Thymidylate synthase; Region: dTMP_synthase; cl15399 499229001612 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 499229001613 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 499229001614 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 499229001615 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 499229001616 homodimer interface [polypeptide binding]; other site 499229001617 NADP binding site [chemical binding]; other site 499229001618 substrate binding site [chemical binding]; other site 499229001619 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 499229001620 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 499229001621 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 499229001622 FAD binding site [chemical binding]; other site 499229001623 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 499229001624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001625 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229001626 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 499229001627 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 499229001628 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 499229001629 P-loop; other site 499229001630 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001631 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 499229001632 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 499229001633 Putative Fe-S cluster; Region: FeS; pfam04060 499229001634 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 499229001635 substrate binding pocket [chemical binding]; other site 499229001636 dimer interface [polypeptide binding]; other site 499229001637 inhibitor binding site; inhibition site 499229001638 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 499229001639 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 499229001640 metal cluster binding site [ion binding]; other site 499229001641 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 499229001642 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 499229001643 lipoyl attachment site [posttranslational modification]; other site 499229001644 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 499229001645 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 499229001646 catalytic loop [active] 499229001647 iron binding site [ion binding]; other site 499229001648 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 499229001649 catalytic site [active] 499229001650 metal binding site [ion binding]; metal-binding site 499229001651 Predicted RNA-binding protein; Region: RNA_bind_2; cl00662 499229001652 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 499229001653 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 499229001654 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 499229001655 glycerol kinase; Provisional; Region: glpK; PRK00047 499229001656 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 499229001657 N- and C-terminal domain interface [polypeptide binding]; other site 499229001658 active site 499229001659 MgATP binding site [chemical binding]; other site 499229001660 catalytic site [active] 499229001661 metal binding site [ion binding]; metal-binding site 499229001662 glycerol binding site [chemical binding]; other site 499229001663 homotetramer interface [polypeptide binding]; other site 499229001664 homodimer interface [polypeptide binding]; other site 499229001665 FBP binding site [chemical binding]; other site 499229001666 protein IIAGlc interface [polypeptide binding]; other site 499229001667 Predicted dehydrogenase [General function prediction only]; Region: COG0579 499229001668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001669 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 499229001670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 499229001671 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229001672 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 499229001673 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 499229001674 dimerization domain swap beta strand [polypeptide binding]; other site 499229001675 regulatory protein interface [polypeptide binding]; other site 499229001676 active site 499229001677 regulatory phosphorylation site [posttranslational modification]; other site 499229001678 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 499229001679 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 499229001680 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229001681 Walker A motif; other site 499229001682 ATP binding site [chemical binding]; other site 499229001683 Walker B motif; other site 499229001684 arginine finger; other site 499229001685 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 499229001686 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229001687 dimer interface [polypeptide binding]; other site 499229001688 putative CheW interface [polypeptide binding]; other site 499229001689 NMT1-like family; Region: NMT1_2; cl15260 499229001690 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 499229001691 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 499229001692 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 499229001693 DAK2 domain; Region: Dak2; cl03685 499229001694 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 499229001695 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 499229001696 AMP-binding enzyme; Region: AMP-binding; cl15778 499229001697 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 499229001698 DNA polymerase IV; Reviewed; Region: PRK03103 499229001699 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 499229001700 active site 499229001701 DNA binding site [nucleotide binding] 499229001702 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 499229001703 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 499229001704 active site 499229001705 motif I; other site 499229001706 motif II; other site 499229001707 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 499229001708 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 499229001709 putative ADP-ribose binding site [chemical binding]; other site 499229001710 putative active site [active] 499229001711 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 499229001712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001713 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 499229001714 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 499229001715 Substrate binding site; other site 499229001716 Cupin domain; Region: Cupin_2; cl09118 499229001717 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 499229001718 Helix-turn-helix domains; Region: HTH; cl00088 499229001719 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 499229001720 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 499229001721 Walker A/P-loop; other site 499229001722 ATP binding site [chemical binding]; other site 499229001723 Q-loop/lid; other site 499229001724 ABC transporter signature motif; other site 499229001725 Walker B; other site 499229001726 D-loop; other site 499229001727 H-loop/switch region; other site 499229001728 TOBE domain; Region: TOBE_2; cl01440 499229001729 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 499229001730 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 499229001731 putative active site [active] 499229001732 putative metal binding site [ion binding]; other site 499229001733 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 499229001734 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 499229001735 Catalytic site [active] 499229001736 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229001737 GTP-binding protein YchF; Reviewed; Region: PRK09601 499229001738 YchF GTPase; Region: YchF; cd01900 499229001739 G1 box; other site 499229001740 GTP/Mg2+ binding site [chemical binding]; other site 499229001741 Switch I region; other site 499229001742 G2 box; other site 499229001743 Switch II region; other site 499229001744 G3 box; other site 499229001745 G4 box; other site 499229001746 G5 box; other site 499229001747 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 499229001748 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 499229001749 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229001750 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229001751 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 499229001752 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 499229001753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001754 Sporulation and spore germination; Region: Germane; cl11253 499229001755 Sporulation and spore germination; Region: Germane; cl11253 499229001756 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229001757 AMIN domain; Region: AMIN; pfam11741 499229001758 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 499229001759 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 499229001760 active site 499229001761 metal binding site [ion binding]; metal-binding site 499229001762 hypothetical protein; Provisional; Region: PRK04164 499229001763 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 499229001764 Sporulation and spore germination; Region: Germane; cl11253 499229001765 Sporulation and spore germination; Region: Germane; cl11253 499229001766 ribonuclease PH; Reviewed; Region: rph; PRK00173 499229001767 Ribonuclease PH; Region: RNase_PH_bact; cd11362 499229001768 hexamer interface [polypeptide binding]; other site 499229001769 active site 499229001770 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 499229001771 active site 499229001772 dimerization interface [polypeptide binding]; other site 499229001773 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 499229001774 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 499229001775 active site 499229001776 metal binding site [ion binding]; metal-binding site 499229001777 homotetramer interface [polypeptide binding]; other site 499229001778 trigger factor; Provisional; Region: tig; PRK01490 499229001779 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 499229001780 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 499229001781 Clp protease; Region: CLP_protease; pfam00574 499229001782 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 499229001783 oligomer interface [polypeptide binding]; other site 499229001784 active site residues [active] 499229001785 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 499229001786 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 499229001787 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229001788 Walker A motif; other site 499229001789 ATP binding site [chemical binding]; other site 499229001790 Walker B motif; other site 499229001791 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 499229001792 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 499229001793 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229001794 Walker A motif; other site 499229001795 ATP binding site [chemical binding]; other site 499229001796 Walker B motif; other site 499229001797 arginine finger; other site 499229001798 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 499229001799 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229001800 putative peptidoglycan binding site; other site 499229001801 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 499229001802 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 499229001803 Ligand Binding Site [chemical binding]; other site 499229001804 dipeptidase PepV; Reviewed; Region: PRK07318 499229001805 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 499229001806 active site 499229001807 metal binding site [ion binding]; metal-binding site 499229001808 Helix-turn-helix domains; Region: HTH; cl00088 499229001809 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 499229001810 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001811 Family description; Region: UvrD_C_2; cl15862 499229001812 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 499229001813 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 499229001814 nucleotide binding pocket [chemical binding]; other site 499229001815 K-X-D-G motif; other site 499229001816 catalytic site [active] 499229001817 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 499229001818 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 499229001819 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 499229001820 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 499229001821 Dimer interface [polypeptide binding]; other site 499229001822 BRCT sequence motif; other site 499229001823 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 499229001824 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 499229001825 intersubunit interface [polypeptide binding]; other site 499229001826 active site 499229001827 Zn2+ binding site [ion binding]; other site 499229001828 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 499229001829 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 499229001830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229001831 Walker A motif; other site 499229001832 ATP binding site [chemical binding]; other site 499229001833 Walker B motif; other site 499229001834 arginine finger; other site 499229001835 Transcriptional antiterminator [Transcription]; Region: COG3933 499229001836 PRD domain; Region: PRD; cl15445 499229001837 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 499229001838 active pocket/dimerization site; other site 499229001839 active site 499229001840 phosphorylation site [posttranslational modification] 499229001841 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 499229001842 active site 499229001843 phosphorylation site [posttranslational modification] 499229001844 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 499229001845 active site 499229001846 phosphorylation site [posttranslational modification] 499229001847 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 499229001848 P-loop; other site 499229001849 active site 499229001850 phosphorylation site [posttranslational modification] 499229001851 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 499229001852 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229001853 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 499229001854 putative NAD(P) binding site [chemical binding]; other site 499229001855 catalytic Zn binding site [ion binding]; other site 499229001856 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229001857 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 499229001858 putative NAD(P) binding site [chemical binding]; other site 499229001859 catalytic Zn binding site [ion binding]; other site 499229001860 structural Zn binding site [ion binding]; other site 499229001861 multiple promoter invertase; Provisional; Region: mpi; PRK13413 499229001862 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 499229001863 catalytic residues [active] 499229001864 catalytic nucleophile [active] 499229001865 Presynaptic Site I dimer interface [polypeptide binding]; other site 499229001866 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 499229001867 Synaptic Flat tetramer interface [polypeptide binding]; other site 499229001868 Synaptic Site I dimer interface [polypeptide binding]; other site 499229001869 DNA binding site [nucleotide binding] 499229001870 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 499229001871 SAF domain; Region: SAF; cl00555 499229001872 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 499229001873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229001874 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 499229001875 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 499229001876 ATP binding site [chemical binding]; other site 499229001877 Walker A motif; other site 499229001878 hexamer interface [polypeptide binding]; other site 499229001879 Walker B motif; other site 499229001880 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 499229001881 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 499229001882 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 499229001883 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 499229001884 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 499229001885 metal ion-dependent adhesion site (MIDAS); other site 499229001886 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 499229001887 T surface-antigen of pili; Region: FctA; pfam12892 499229001888 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 499229001889 T surface-antigen of pili; Region: FctA; pfam12892 499229001890 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 499229001891 endonuclease subunit; Provisional; Region: 46; PHA02562 499229001892 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 499229001893 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 499229001894 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229001895 DNA binding residues [nucleotide binding] 499229001896 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 499229001897 Glucitol operon activator protein (GutM); Region: GutM; cl01890 499229001898 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 499229001899 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 499229001900 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 499229001901 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 499229001902 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 499229001903 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 499229001904 SAF domain; Region: SAF; cl00555 499229001905 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 499229001906 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 499229001907 tetramer interface [polypeptide binding]; other site 499229001908 TPP-binding site [chemical binding]; other site 499229001909 heterodimer interface [polypeptide binding]; other site 499229001910 phosphorylation loop region [posttranslational modification] 499229001911 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 499229001912 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 499229001913 alpha subunit interface [polypeptide binding]; other site 499229001914 TPP binding site [chemical binding]; other site 499229001915 heterodimer interface [polypeptide binding]; other site 499229001916 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 499229001917 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 499229001918 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 499229001919 E3 interaction surface; other site 499229001920 lipoyl attachment site [posttranslational modification]; other site 499229001921 e3 binding domain; Region: E3_binding; pfam02817 499229001922 e3 binding domain; Region: E3_binding; pfam02817 499229001923 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 499229001924 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 499229001925 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229001926 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 499229001927 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 499229001928 Aspartase; Region: Aspartase; cd01357 499229001929 active sites [active] 499229001930 tetramer interface [polypeptide binding]; other site 499229001931 glycyl-tRNA synthetase; Provisional; Region: PRK04173 499229001932 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 attaches...; Region: class_II_aaRS-like_core; cl00268 499229001933 motif 1; other site 499229001934 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 499229001935 active site 499229001936 motif 2; other site 499229001937 motif 3; other site 499229001938 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 499229001939 anticodon binding site; other site 499229001940 Transcriptional regulators [Transcription]; Region: PurR; COG1609 499229001941 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 499229001942 DNA binding site [nucleotide binding] 499229001943 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 499229001944 ligand binding site [chemical binding]; other site 499229001945 dimerization interface [polypeptide binding]; other site 499229001946 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 499229001947 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 499229001948 putative ligand binding site [chemical binding]; other site 499229001949 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 499229001950 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 499229001951 Walker A/P-loop; other site 499229001952 ATP binding site [chemical binding]; other site 499229001953 Q-loop/lid; other site 499229001954 ABC transporter signature motif; other site 499229001955 Walker B; other site 499229001956 D-loop; other site 499229001957 H-loop/switch region; other site 499229001958 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 499229001959 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 499229001960 TM-ABC transporter signature motif; other site 499229001961 Creatinine amidohydrolase; Region: Creatininase; cl00618 499229001962 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 499229001963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229001964 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 499229001965 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 499229001966 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 499229001967 DNA interaction; other site 499229001968 Metal-binding active site; metal-binding site 499229001969 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 499229001970 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 499229001971 active site 499229001972 substrate binding site [chemical binding]; other site 499229001973 metal binding site [ion binding]; metal-binding site 499229001974 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 499229001975 Helix-turn-helix domains; Region: HTH; cl00088 499229001976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 499229001977 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 499229001978 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 499229001979 dimer interface [polypeptide binding]; other site 499229001980 motif 1; other site 499229001981 active site 499229001982 motif 2; other site 499229001983 motif 3; other site 499229001984 ATP phosphoribosyltransferase; Region: HisG; cl15266 499229001985 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 499229001986 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 499229001987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229001988 homodimer interface [polypeptide binding]; other site 499229001989 catalytic residue [active] 499229001990 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 499229001991 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 499229001992 putative active site pocket [active] 499229001993 4-fold oligomerization interface [polypeptide binding]; other site 499229001994 metal binding residues [ion binding]; metal-binding site 499229001995 3-fold/trimer interface [polypeptide binding]; other site 499229001996 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 499229001997 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 499229001998 catalytic residues [active] 499229001999 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 499229002000 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 499229002001 substrate binding site [chemical binding]; other site 499229002002 glutamase interaction surface [polypeptide binding]; other site 499229002003 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 499229002004 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 499229002005 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 499229002006 YtxC-like family; Region: YtxC; cl08500 499229002007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 499229002008 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 499229002009 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 499229002010 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 499229002011 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 499229002012 active site 499229002013 dimer interface [polypeptide binding]; other site 499229002014 motif 1; other site 499229002015 motif 2; other site 499229002016 motif 3; other site 499229002017 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 499229002018 anticodon binding site; other site 499229002019 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 499229002020 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 499229002021 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 499229002022 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 499229002023 ribosomal protein L20; Region: rpl20; CHL00068 499229002024 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 499229002025 23S rRNA binding site [nucleotide binding]; other site 499229002026 L21 binding site [polypeptide binding]; other site 499229002027 L13 binding site [polypeptide binding]; other site 499229002028 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 499229002029 Cation transport protein; Region: TrkH; cl10514 499229002030 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 499229002031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002032 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; cl15357 499229002033 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 499229002034 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 499229002035 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 499229002036 YqzL-like protein; Region: YqzL; pfam14006 499229002037 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 499229002038 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 499229002039 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 499229002040 dimer interface [polypeptide binding]; other site 499229002041 motif 1; other site 499229002042 active site 499229002043 motif 2; other site 499229002044 motif 3; other site 499229002045 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 499229002046 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 499229002047 putative tRNA-binding site [nucleotide binding]; other site 499229002048 B3/4 domain; Region: B3_4; cl11458 499229002049 tRNA synthetase B5 domain; Region: B5; cl08394 499229002050 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 499229002051 dimer interface [polypeptide binding]; other site 499229002052 motif 1; other site 499229002053 motif 3; other site 499229002054 motif 2; other site 499229002055 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 499229002056 Cell division protein ZapA; Region: ZapA; cl01146 499229002057 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 499229002058 hypothetical protein; Provisional; Region: PRK08609 499229002059 active site 499229002060 primer binding site [nucleotide binding]; other site 499229002061 NTP binding site [chemical binding]; other site 499229002062 metal binding triad [ion binding]; metal-binding site 499229002063 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 499229002064 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 499229002065 Walker A/P-loop; other site 499229002066 ATP binding site [chemical binding]; other site 499229002067 Q-loop/lid; other site 499229002068 ABC transporter signature motif; other site 499229002069 Walker B; other site 499229002070 D-loop; other site 499229002071 H-loop/switch region; other site 499229002072 Smr domain; Region: Smr; cl02619 499229002073 Protein of unknown function (DUF523); Region: DUF523; cl00733 499229002074 Transglycosylase; Region: Transgly; cl07896 499229002075 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 499229002076 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 499229002077 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 499229002078 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 499229002079 HIGH motif; other site 499229002080 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 499229002081 active site 499229002082 KMSKS motif; other site 499229002083 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 499229002084 tRNA binding surface [nucleotide binding]; other site 499229002085 anticodon binding site; other site 499229002086 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 499229002087 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 499229002088 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 499229002089 minor groove reading motif; other site 499229002090 helix-hairpin-helix signature motif; other site 499229002091 substrate binding pocket [chemical binding]; other site 499229002092 active site 499229002093 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 499229002094 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229002095 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 499229002096 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 499229002097 generic binding surface I; other site 499229002098 generic binding surface II; other site 499229002099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229002100 Zn2+ binding site [ion binding]; other site 499229002101 Mg2+ binding site [ion binding]; other site 499229002102 HPr kinase/phosphorylase; Provisional; Region: PRK05428 499229002103 DRTGG domain; Region: DRTGG; cl12147 499229002104 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 499229002105 Hpr binding site; other site 499229002106 active site 499229002107 homohexamer subunit interaction site [polypeptide binding]; other site 499229002108 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 499229002109 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 499229002110 dimer interface [polypeptide binding]; other site 499229002111 active site 499229002112 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 499229002113 dimer interface [polypeptide binding]; other site 499229002114 active site 499229002115 putative hydrolase; Validated; Region: PRK09248 499229002116 RNase P subunit p30; Region: RNase_P_p30; cl03389 499229002117 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 499229002118 homodimer interface [polypeptide binding]; other site 499229002119 substrate-cofactor binding pocket; other site 499229002120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229002121 catalytic residue [active] 499229002122 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 499229002123 FAD binding domain; Region: FAD_binding_4; pfam01565 499229002124 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 499229002125 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 499229002126 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 499229002127 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 499229002128 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 499229002129 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 499229002130 MgtE intracellular N domain; Region: MgtE_N; cl15244 499229002131 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 499229002132 Divalent cation transporter; Region: MgtE; cl00786 499229002133 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 499229002134 MgtE intracellular N domain; Region: MgtE_N; cl15244 499229002135 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 499229002136 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 499229002137 Divalent cation transporter; Region: MgtE; cl00786 499229002138 Protein of unknown function (DUF964); Region: DUF964; cl01483 499229002139 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 499229002140 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 499229002141 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 499229002142 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 499229002143 phosphate binding site [ion binding]; other site 499229002144 putative substrate binding pocket [chemical binding]; other site 499229002145 dimer interface [polypeptide binding]; other site 499229002146 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 499229002147 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 499229002148 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 499229002149 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 499229002150 dimerization domain swap beta strand [polypeptide binding]; other site 499229002151 regulatory protein interface [polypeptide binding]; other site 499229002152 active site 499229002153 regulatory phosphorylation site [posttranslational modification]; other site 499229002154 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 499229002155 Helix-turn-helix domains; Region: HTH; cl00088 499229002156 DNA-binding site [nucleotide binding]; DNA binding site 499229002157 DRTGG domain; Region: DRTGG; cl12147 499229002158 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 499229002159 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 499229002160 active site 2 [active] 499229002161 active site 1 [active] 499229002162 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 499229002163 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 499229002164 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 499229002165 generic binding surface I; other site 499229002166 generic binding surface II; other site 499229002167 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 499229002168 active site 499229002169 ADP/pyrophosphate binding site [chemical binding]; other site 499229002170 dimerization interface [polypeptide binding]; other site 499229002171 allosteric effector site; other site 499229002172 fructose-1,6-bisphosphate binding site; other site 499229002173 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 499229002174 pyruvate kinase; Provisional; Region: PRK05826 499229002175 domain interfaces; other site 499229002176 active site 499229002177 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 499229002178 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 499229002179 motif II; other site 499229002180 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 499229002181 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 499229002182 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 499229002183 Transcriptional regulators [Transcription]; Region: PurR; COG1609 499229002184 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 499229002185 DNA binding site [nucleotide binding] 499229002186 domain linker motif; other site 499229002187 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 499229002188 ligand binding site [chemical binding]; other site 499229002189 dimerization interface [polypeptide binding]; other site 499229002190 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 499229002191 dimer interface [polypeptide binding]; other site 499229002192 active site 499229002193 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 499229002194 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 499229002195 motif II; other site 499229002196 Uncharacterized conserved protein [Function unknown]; Region: COG1915 499229002197 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 499229002198 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 499229002199 substrate binding site [chemical binding]; other site 499229002200 ATP binding site [chemical binding]; other site 499229002201 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 499229002202 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 499229002203 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 499229002204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002205 Walker A/P-loop; other site 499229002206 ATP binding site [chemical binding]; other site 499229002207 Q-loop/lid; other site 499229002208 ABC transporter signature motif; other site 499229002209 Walker B; other site 499229002210 D-loop; other site 499229002211 H-loop/switch region; other site 499229002212 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 499229002213 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 499229002214 TM-ABC transporter signature motif; other site 499229002215 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 499229002216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002217 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 499229002218 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 499229002219 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 499229002220 Metal-binding active site; metal-binding site 499229002221 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 499229002222 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 499229002223 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229002224 AMP-binding enzyme; Region: AMP-binding; cl15778 499229002225 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 499229002226 ACT domain-containing protein [General function prediction only]; Region: COG4747 499229002227 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 499229002228 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 499229002229 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 499229002230 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 499229002231 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 499229002232 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 499229002233 catalytic triad [active] 499229002234 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 499229002235 Helix-turn-helix domains; Region: HTH; cl00088 499229002236 3H domain; Region: 3H; pfam02829 499229002237 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 499229002238 Spore germination protein; Region: Spore_permease; cl15802 499229002239 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 499229002240 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 499229002241 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 499229002242 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 499229002243 manganese transport transcriptional regulator; Provisional; Region: PRK03902 499229002244 Helix-turn-helix domains; Region: HTH; cl00088 499229002245 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 499229002246 FeoA domain; Region: FeoA; cl00838 499229002247 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 499229002248 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 499229002249 G1 box; other site 499229002250 GTP/Mg2+ binding site [chemical binding]; other site 499229002251 Switch I region; other site 499229002252 G2 box; other site 499229002253 G3 box; other site 499229002254 Switch II region; other site 499229002255 G4 box; other site 499229002256 G5 box; other site 499229002257 Nucleoside recognition; Region: Gate; cl00486 499229002258 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 499229002259 Nucleoside recognition; Region: Gate; cl00486 499229002260 Helix-turn-helix domains; Region: HTH; cl00088 499229002261 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 499229002262 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229002263 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 499229002264 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229002265 hypothetical protein; Provisional; Region: PRK08185 499229002266 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 499229002267 intersubunit interface [polypeptide binding]; other site 499229002268 active site 499229002269 zinc binding site [ion binding]; other site 499229002270 Na+ binding site [ion binding]; other site 499229002271 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 499229002272 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 499229002273 dimer interface [polypeptide binding]; other site 499229002274 active site 499229002275 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 499229002276 dimer interface [polypeptide binding]; other site 499229002277 active site 499229002278 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 499229002279 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 499229002280 putative substrate binding site [chemical binding]; other site 499229002281 putative ATP binding site [chemical binding]; other site 499229002282 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 499229002283 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 499229002284 ligand binding site [chemical binding]; other site 499229002285 calcium binding site [ion binding]; other site 499229002286 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 499229002287 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 499229002288 Walker A/P-loop; other site 499229002289 ATP binding site [chemical binding]; other site 499229002290 Q-loop/lid; other site 499229002291 ABC transporter signature motif; other site 499229002292 Walker B; other site 499229002293 D-loop; other site 499229002294 H-loop/switch region; other site 499229002295 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 499229002296 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 499229002297 TM-ABC transporter signature motif; other site 499229002298 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 499229002299 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 499229002300 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 499229002301 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 499229002302 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 499229002303 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 499229002304 NPCBM/NEW2 domain; Region: NPCBM; cl07060 499229002305 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 499229002306 dockerin binding interface; other site 499229002307 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 499229002308 MG2 domain; Region: A2M_N; pfam01835 499229002309 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 499229002310 S-layer homology domain; Region: SLH; pfam00395 499229002311 S-layer homology domain; Region: SLH; pfam00395 499229002312 S-layer homology domain; Region: SLH; pfam00395 499229002313 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 499229002314 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 499229002315 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 499229002316 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 499229002317 4Fe-4S binding domain; Region: Fer4; cl02805 499229002318 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 499229002319 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 499229002320 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 499229002321 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229002322 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229002323 DNA binding residues [nucleotide binding] 499229002324 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 499229002325 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229002326 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 499229002327 Helix-turn-helix domains; Region: HTH; cl00088 499229002328 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 499229002329 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 499229002330 RNA polymerase factor sigma-70; Validated; Region: PRK06811 499229002331 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229002332 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229002333 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 499229002334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 499229002335 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 499229002336 active site 499229002337 phosphorylation site [posttranslational modification] 499229002338 intermolecular recognition site; other site 499229002339 dimerization interface [polypeptide binding]; other site 499229002340 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229002341 DNA binding site [nucleotide binding] 499229002342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 499229002343 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 499229002344 dimerization interface [polypeptide binding]; other site 499229002345 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 499229002346 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229002347 dimer interface [polypeptide binding]; other site 499229002348 phosphorylation site [posttranslational modification] 499229002349 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 499229002350 ATP binding site [chemical binding]; other site 499229002351 Mg2+ binding site [ion binding]; other site 499229002352 G-X-G motif; other site 499229002353 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 499229002354 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 499229002355 dimer interface [polypeptide binding]; other site 499229002356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229002357 catalytic residue [active] 499229002358 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 499229002359 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 499229002360 active sites [active] 499229002361 tetramer interface [polypeptide binding]; other site 499229002362 Sodium:solute symporter family; Region: SSF; cl00456 499229002363 urocanate hydratase; Provisional; Region: PRK05414 499229002364 glutamate formiminotransferase; Region: FtcD; TIGR02024 499229002365 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 499229002366 Formiminotransferase domain; Region: FTCD; pfam02971 499229002367 imidazolonepropionase; Validated; Region: PRK09356 499229002368 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 499229002369 active site 499229002370 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 499229002371 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 499229002372 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 499229002373 peptide binding site [polypeptide binding]; other site 499229002374 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 499229002375 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 499229002376 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229002377 dimer interface [polypeptide binding]; other site 499229002378 conserved gate region; other site 499229002379 putative PBP binding loops; other site 499229002380 ABC-ATPase subunit interface; other site 499229002381 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 499229002382 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 499229002383 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229002384 dimer interface [polypeptide binding]; other site 499229002385 conserved gate region; other site 499229002386 putative PBP binding loops; other site 499229002387 ABC-ATPase subunit interface; other site 499229002388 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 499229002389 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 499229002390 Walker A/P-loop; other site 499229002391 ATP binding site [chemical binding]; other site 499229002392 Q-loop/lid; other site 499229002393 ABC transporter signature motif; other site 499229002394 Walker B; other site 499229002395 D-loop; other site 499229002396 H-loop/switch region; other site 499229002397 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229002398 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 499229002399 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 499229002400 Walker A/P-loop; other site 499229002401 ATP binding site [chemical binding]; other site 499229002402 Q-loop/lid; other site 499229002403 ABC transporter signature motif; other site 499229002404 Walker B; other site 499229002405 D-loop; other site 499229002406 H-loop/switch region; other site 499229002407 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229002408 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229002409 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229002410 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229002411 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229002412 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 499229002413 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 499229002414 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: GT1_like_1; cd04950 499229002415 putative homodimer interface [polypeptide binding]; other site 499229002416 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 499229002417 active site 499229002418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002419 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229002420 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229002421 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229002422 NMT1-like family; Region: NMT1_2; cl15260 499229002423 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 499229002424 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 499229002425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229002426 dimer interface [polypeptide binding]; other site 499229002427 conserved gate region; other site 499229002428 putative PBP binding loops; other site 499229002429 ABC-ATPase subunit interface; other site 499229002430 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 499229002431 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 499229002432 Walker A/P-loop; other site 499229002433 ATP binding site [chemical binding]; other site 499229002434 Q-loop/lid; other site 499229002435 ABC transporter signature motif; other site 499229002436 Walker B; other site 499229002437 D-loop; other site 499229002438 H-loop/switch region; other site 499229002439 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 499229002440 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 499229002441 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 499229002442 ATP binding site [chemical binding]; other site 499229002443 Mg2+ binding site [ion binding]; other site 499229002444 G-X-G motif; other site 499229002445 Response regulator receiver domain; Region: Response_reg; pfam00072 499229002446 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 499229002447 active site 499229002448 phosphorylation site [posttranslational modification] 499229002449 intermolecular recognition site; other site 499229002450 dimerization interface [polypeptide binding]; other site 499229002451 YcbB domain; Region: YcbB; pfam08664 499229002452 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229002453 DctM-like transporters; Region: DctM; pfam06808 499229002454 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 499229002455 NMT1-like family; Region: NMT1_2; cl15260 499229002456 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 499229002457 LemA family; Region: LemA; cl00742 499229002458 Repair protein; Region: Repair_PSII; cl01535 499229002459 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 499229002460 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 499229002461 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 499229002462 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 499229002463 active site 499229002464 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 499229002465 DNA-binding site [nucleotide binding]; DNA binding site 499229002466 RNA-binding motif; other site 499229002467 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 499229002468 30S subunit binding site; other site 499229002469 FOG: WD40-like repeat [Function unknown]; Region: COG1520 499229002470 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 499229002471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002472 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 499229002473 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 499229002474 nucleotide binding region [chemical binding]; other site 499229002475 ATP-binding site [chemical binding]; other site 499229002476 peptide chain release factor 2; Validated; Region: prfB; PRK00578 499229002477 RF-1 domain; Region: RF-1; cl02875 499229002478 RF-1 domain; Region: RF-1; cl02875 499229002479 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 499229002480 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 499229002481 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229002482 active site 499229002483 flagellar operon protein TIGR03826; Region: YvyF 499229002484 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 499229002485 FlgN protein; Region: FlgN; cl09176 499229002486 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 499229002487 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 499229002488 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 499229002489 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 499229002490 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 499229002491 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 499229002492 FliW protein; Region: FliW; cl00740 499229002493 Global regulator protein family; Region: CsrA; cl00670 499229002494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002495 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 499229002496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002498 Restriction endonuclease [Defense mechanisms]; Region: COG3587 499229002499 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002500 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 499229002501 Protein of unknown function DUF262; Region: DUF262; cl14890 499229002502 Protein of unknown function DUF262; Region: DUF262; cl14890 499229002503 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 499229002504 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701 499229002505 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 499229002506 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 499229002507 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002508 G3 box; other site 499229002509 Switch II region; other site 499229002510 GTP/Mg2+ binding site [chemical binding]; other site 499229002511 G4 box; other site 499229002512 G5 box; other site 499229002513 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 499229002514 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 499229002515 active site 499229002516 NTP binding site [chemical binding]; other site 499229002517 metal binding triad [ion binding]; metal-binding site 499229002518 antibiotic binding site [chemical binding]; other site 499229002519 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 499229002520 active site 499229002521 NTP binding site [chemical binding]; other site 499229002522 metal binding triad [ion binding]; metal-binding site 499229002523 antibiotic binding site [chemical binding]; other site 499229002524 flagellin; Reviewed; Region: PRK08869 499229002525 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 499229002526 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 499229002527 FlaG protein; Region: FlaG; cl00591 499229002528 flagellar capping protein; Validated; Region: fliD; PRK07737 499229002529 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 499229002530 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 499229002531 Flagellar protein FliS; Region: FliS; cl00654 499229002532 FlgN protein; Region: FlgN; cl09176 499229002533 Probable zinc-binding domain; Region: zf-trcl; pfam13451 499229002534 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 499229002535 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 499229002536 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 499229002537 putative active site [active] 499229002538 heme pocket [chemical binding]; other site 499229002539 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229002540 Walker A motif; other site 499229002541 ATP binding site [chemical binding]; other site 499229002542 Walker B motif; other site 499229002543 arginine finger; other site 499229002544 Helix-turn-helix domains; Region: HTH; cl00088 499229002545 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 499229002546 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 499229002547 homodimer interface [polypeptide binding]; other site 499229002548 substrate-cofactor binding pocket; other site 499229002549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229002550 catalytic residue [active] 499229002551 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 499229002552 histidinol-phosphatase; Provisional; Region: PRK07328 499229002553 PHP-associated; Region: PHP_C; pfam13263 499229002554 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 499229002555 Cache domain; Region: Cache_1; pfam02743 499229002556 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 499229002557 dimerization interface [polypeptide binding]; other site 499229002558 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 499229002559 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229002560 dimer interface [polypeptide binding]; other site 499229002561 putative CheW interface [polypeptide binding]; other site 499229002562 TRAM domain; Region: TRAM; cl01282 499229002563 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229002564 TRAM domain; Region: TRAM; cl01282 499229002565 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 499229002566 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 499229002567 S-adenosylmethionine binding site [chemical binding]; other site 499229002568 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 499229002569 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 499229002570 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 499229002571 Walker A/P-loop; other site 499229002572 ATP binding site [chemical binding]; other site 499229002573 Q-loop/lid; other site 499229002574 ABC transporter signature motif; other site 499229002575 Walker B; other site 499229002576 D-loop; other site 499229002577 H-loop/switch region; other site 499229002578 ABC-2 type transporter; Region: ABC2_membrane; cl11417 499229002579 Leucine carboxyl methyltransferase; Region: LCM; cl01306 499229002580 GTPase RsgA; Reviewed; Region: PRK01889 499229002581 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 499229002582 GTPase/Zn-binding domain interface [polypeptide binding]; other site 499229002583 GTP/Mg2+ binding site [chemical binding]; other site 499229002584 G4 box; other site 499229002585 G5 box; other site 499229002586 G1 box; other site 499229002587 Switch I region; other site 499229002588 G2 box; other site 499229002589 G3 box; other site 499229002590 Switch II region; other site 499229002591 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 499229002592 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 499229002593 S-adenosylmethionine binding site [chemical binding]; other site 499229002594 HEPN domain; Region: HEPN; cl00824 499229002595 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 499229002596 active site 499229002597 NTP binding site [chemical binding]; other site 499229002598 metal binding triad [ion binding]; metal-binding site 499229002599 antibiotic binding site [chemical binding]; other site 499229002600 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 499229002601 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 499229002602 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 499229002603 active site 499229002604 NTP binding site [chemical binding]; other site 499229002605 metal binding triad [ion binding]; metal-binding site 499229002606 SEC-C motif; Region: SEC-C; pfam02810 499229002607 Helix-turn-helix domains; Region: HTH; cl00088 499229002608 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 499229002609 ATP binding site [chemical binding]; other site 499229002610 putative Mg++ binding site [ion binding]; other site 499229002611 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 499229002612 nucleotide binding region [chemical binding]; other site 499229002613 ATP-binding site [chemical binding]; other site 499229002614 Abi-like protein; Region: Abi_2; cl01988 499229002615 ABC-2 type transporter; Region: ABC2_membrane; cl11417 499229002616 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 499229002617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002618 Walker A/P-loop; other site 499229002619 ATP binding site [chemical binding]; other site 499229002620 Q-loop/lid; other site 499229002621 ABC transporter signature motif; other site 499229002622 Walker B; other site 499229002623 D-loop; other site 499229002624 H-loop/switch region; other site 499229002625 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 499229002626 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 499229002627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 499229002628 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 499229002629 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 499229002630 Protein with unknown function (DUF469); Region: DUF469; cl01237 499229002631 CAAX protease self-immunity; Region: Abi; cl00558 499229002632 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 499229002633 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 499229002634 active site 499229002635 phosphorylation site [posttranslational modification] 499229002636 intermolecular recognition site; other site 499229002637 dimerization interface [polypeptide binding]; other site 499229002638 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229002639 DNA binding site [nucleotide binding] 499229002640 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 499229002641 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229002642 dimer interface [polypeptide binding]; other site 499229002643 phosphorylation site [posttranslational modification] 499229002644 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 499229002645 ATP binding site [chemical binding]; other site 499229002646 Mg2+ binding site [ion binding]; other site 499229002647 G-X-G motif; other site 499229002648 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 499229002649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002650 Walker A/P-loop; other site 499229002651 ATP binding site [chemical binding]; other site 499229002652 Q-loop/lid; other site 499229002653 ABC transporter signature motif; other site 499229002654 Walker B; other site 499229002655 D-loop; other site 499229002656 H-loop/switch region; other site 499229002657 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 499229002658 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 facilitated...; Region: ABCF_EF-3; cd03221 499229002659 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 facilitated...; Region: ABCF_EF-3; cd03221 499229002660 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 499229002661 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 499229002662 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 499229002663 Accessory gene regulator B; Region: AgrB; cl01873 499229002664 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 499229002665 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 499229002666 active site 499229002667 phosphorylation site [posttranslational modification] 499229002668 intermolecular recognition site; other site 499229002669 dimerization interface [polypeptide binding]; other site 499229002670 LytTr DNA-binding domain; Region: LytTR; cl04498 499229002671 Transposase, Mutator family; Region: Transposase_mut; pfam00872 499229002672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 499229002673 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 499229002674 catalytic residues [active] 499229002675 Recombinase; Region: Recombinase; pfam07508 499229002676 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 499229002677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 499229002678 HTH-like domain; Region: HTH_21; pfam13276 499229002679 Integrase core domain; Region: rve_3; cl15866 499229002680 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 499229002681 Transposase domain (DUF772); Region: DUF772; cl15789 499229002682 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 499229002683 Helix-turn-helix domains; Region: HTH; cl00088 499229002684 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 499229002685 Helix-turn-helix domains; Region: HTH; cl00088 499229002686 WHG domain; Region: WHG; pfam13305 499229002687 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 499229002688 4Fe-4S binding domain; Region: Fer4; cl02805 499229002689 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 499229002690 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 499229002691 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 499229002692 non-specific DNA binding site [nucleotide binding]; other site 499229002693 salt bridge; other site 499229002694 sequence-specific DNA binding site [nucleotide binding]; other site 499229002695 Cupin domain; Region: Cupin_2; cl09118 499229002696 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 499229002697 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 499229002698 active site 499229002699 putative substrate binding pocket [chemical binding]; other site 499229002700 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229002701 GntP family permease; Region: GntP_permease; pfam02447 499229002702 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 499229002703 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 499229002704 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229002705 catalytic residue [active] 499229002706 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229002707 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 499229002708 translocation protein TolB; Provisional; Region: tolB; PRK00178 499229002709 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 499229002710 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 499229002711 active site 499229002712 phosphorylation site [posttranslational modification] 499229002713 intermolecular recognition site; other site 499229002714 dimerization interface [polypeptide binding]; other site 499229002715 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229002716 DNA binding site [nucleotide binding] 499229002717 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229002718 dimer interface [polypeptide binding]; other site 499229002719 phosphorylation site [posttranslational modification] 499229002720 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 499229002721 ATP binding site [chemical binding]; other site 499229002722 Mg2+ binding site [ion binding]; other site 499229002723 G-X-G motif; other site 499229002724 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 499229002725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002726 Walker A/P-loop; other site 499229002727 ATP binding site [chemical binding]; other site 499229002728 Q-loop/lid; other site 499229002729 ABC transporter signature motif; other site 499229002730 Walker B; other site 499229002731 D-loop; other site 499229002732 H-loop/switch region; other site 499229002733 ABC-2 type transporter; Region: ABC2_membrane; cl11417 499229002734 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 499229002735 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 499229002736 inhibitor-cofactor binding pocket; inhibition site 499229002737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229002738 catalytic residue [active] 499229002739 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 499229002740 MatE; Region: MatE; cl10513 499229002741 MatE; Region: MatE; cl10513 499229002742 Domain of unknown function (DUF348); Region: DUF348; pfam03990 499229002743 Domain of unknown function (DUF348); Region: DUF348; pfam03990 499229002744 G5 domain; Region: G5; pfam07501 499229002745 3D domain; Region: 3D; cl01439 499229002746 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 499229002747 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 499229002748 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 499229002749 Protein of unknown function (DUF421); Region: DUF421; cl00990 499229002750 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 499229002751 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 499229002752 dimer interface [polypeptide binding]; other site 499229002753 [2Fe-2S] cluster binding site [ion binding]; other site 499229002754 4Fe-4S binding domain; Region: Fer4; cl02805 499229002755 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 499229002756 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 499229002757 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 499229002758 Putative Fe-S cluster; Region: FeS; pfam04060 499229002759 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 499229002760 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; cl00120 499229002761 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 499229002762 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 499229002763 ATP binding site [chemical binding]; other site 499229002764 putative Mg++ binding site [ion binding]; other site 499229002765 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 499229002766 nucleotide binding region [chemical binding]; other site 499229002767 ATP-binding site [chemical binding]; other site 499229002768 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 499229002769 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 499229002770 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229002771 binding surface 499229002772 TPR motif; other site 499229002773 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 499229002774 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 499229002775 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 499229002776 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 499229002777 dimerization interface [polypeptide binding]; other site 499229002778 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 499229002779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229002780 dimer interface [polypeptide binding]; other site 499229002781 conserved gate region; other site 499229002782 putative PBP binding loops; other site 499229002783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 499229002784 ABC-ATPase subunit interface; other site 499229002785 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 499229002786 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229002787 dimer interface [polypeptide binding]; other site 499229002788 conserved gate region; other site 499229002789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 499229002790 ABC-ATPase subunit interface; other site 499229002791 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 499229002792 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 499229002793 active site 499229002794 phosphorylation site [posttranslational modification] 499229002795 intermolecular recognition site; other site 499229002796 dimerization interface [polypeptide binding]; other site 499229002797 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229002798 DNA binding site [nucleotide binding] 499229002799 sensory histidine kinase CreC; Provisional; Region: PRK11100 499229002800 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 499229002801 dimerization interface [polypeptide binding]; other site 499229002802 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 499229002803 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 499229002804 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229002805 dimer interface [polypeptide binding]; other site 499229002806 phosphorylation site [posttranslational modification] 499229002807 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 499229002808 ATP binding site [chemical binding]; other site 499229002809 Mg2+ binding site [ion binding]; other site 499229002810 G-X-G motif; other site 499229002811 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 499229002812 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 499229002813 Walker A/P-loop; other site 499229002814 ATP binding site [chemical binding]; other site 499229002815 Q-loop/lid; other site 499229002816 ABC transporter signature motif; other site 499229002817 Walker B; other site 499229002818 D-loop; other site 499229002819 H-loop/switch region; other site 499229002820 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 499229002821 PhoU domain; Region: PhoU; pfam01895 499229002822 PhoU domain; Region: PhoU; pfam01895 499229002823 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 499229002824 active site 499229002825 intersubunit interactions; other site 499229002826 catalytic residue [active] 499229002827 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 499229002828 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 499229002829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002830 SAF domain; Region: SAF; cl00555 499229002831 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 499229002832 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 499229002833 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 499229002834 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 499229002835 Membrane transport protein; Region: Mem_trans; cl09117 499229002836 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 499229002837 ABC-2 type transporter; Region: ABC2_membrane; cl11417 499229002838 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 499229002839 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229002840 Walker A/P-loop; other site 499229002841 ATP binding site [chemical binding]; other site 499229002842 Q-loop/lid; other site 499229002843 ABC transporter signature motif; other site 499229002844 Walker B; other site 499229002845 D-loop; other site 499229002846 H-loop/switch region; other site 499229002847 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 499229002848 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 499229002849 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 499229002850 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 499229002851 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 499229002852 cobalamin binding residues [chemical binding]; other site 499229002853 putative BtuC binding residues; other site 499229002854 dimer interface [polypeptide binding]; other site 499229002855 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 499229002856 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 499229002857 ABC-ATPase subunit interface; other site 499229002858 dimer interface [polypeptide binding]; other site 499229002859 putative PBP binding regions; other site 499229002860 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 499229002861 homotrimer interface [polypeptide binding]; other site 499229002862 Walker A motif; other site 499229002863 GTP binding site [chemical binding]; other site 499229002864 Walker B motif; other site 499229002865 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 499229002866 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 499229002867 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 499229002868 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 499229002869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229002870 homodimer interface [polypeptide binding]; other site 499229002871 catalytic residue [active] 499229002872 CobD/Cbib protein; Region: CobD_Cbib; cl00561 499229002873 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 499229002874 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 499229002875 catalytic core [active] 499229002876 NifU-like domain; Region: NifU; cl00484 499229002877 Thiamine pyrophosphokinase; Region: TPK; cd07995 499229002878 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 499229002879 active site 499229002880 dimerization interface [polypeptide binding]; other site 499229002881 thiamine binding site [chemical binding]; other site 499229002882 OpgC protein; Region: OpgC_C; cl00792 499229002883 Acyltransferase family; Region: Acyl_transf_3; pfam01757 499229002884 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 499229002885 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229002886 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229002887 DNA binding residues [nucleotide binding] 499229002888 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 499229002889 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 499229002890 Helix-turn-helix domains; Region: HTH; cl00088 499229002891 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 499229002892 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 499229002893 histidinol dehydrogenase; Region: hisD; TIGR00069 499229002894 NAD binding site [chemical binding]; other site 499229002895 dimerization interface [polypeptide binding]; other site 499229002896 product binding site; other site 499229002897 substrate binding site [chemical binding]; other site 499229002898 zinc binding site [ion binding]; other site 499229002899 catalytic residues [active] 499229002900 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 499229002901 active site 499229002902 metal binding site [ion binding]; metal-binding site 499229002903 ribonuclease R; Region: RNase_R; TIGR02063 499229002904 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 499229002905 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 499229002906 RNB domain; Region: RNB; pfam00773 499229002907 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 499229002908 RNA binding site [nucleotide binding]; other site 499229002909 Domain of unknown function (DUF955); Region: DUF955; cl01076 499229002910 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 499229002911 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 499229002912 non-specific DNA binding site [nucleotide binding]; other site 499229002913 salt bridge; other site 499229002914 sequence-specific DNA binding site [nucleotide binding]; other site 499229002915 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 499229002916 non-specific DNA binding site [nucleotide binding]; other site 499229002917 salt bridge; other site 499229002918 sequence-specific DNA binding site [nucleotide binding]; other site 499229002919 ERF superfamily; Region: ERF; pfam04404 499229002920 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 499229002921 replicative DNA helicase; Region: DnaB; TIGR00665 499229002922 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 499229002923 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 499229002924 Walker A motif; other site 499229002925 ATP binding site [chemical binding]; other site 499229002926 Walker B motif; other site 499229002927 DNA binding loops [nucleotide binding] 499229002928 Domain of unknown function (DUF370); Region: DUF370; cl00898 499229002929 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 499229002930 dimer interface [polypeptide binding]; other site 499229002931 ssDNA binding site [nucleotide binding]; other site 499229002932 tetramer (dimer of dimers) interface [polypeptide binding]; other site 499229002933 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 499229002934 YcfA-like protein; Region: YcfA; cl00752 499229002935 Uncharacterized conserved protein [Function unknown]; Region: COG5484 499229002936 Helix-turn-helix domains; Region: HTH; cl00088 499229002937 Phage terminase large subunit; Region: Terminase_3; cl12054 499229002938 Terminase-like family; Region: Terminase_6; pfam03237 499229002939 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 499229002940 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 499229002941 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 499229002942 Pyocin large subunit [General function prediction only]; Region: COG5529 499229002943 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 499229002944 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 499229002945 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 499229002946 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 499229002947 Phage tail protein; Region: Phage_tail_3; pfam08813 499229002948 YqfQ-like protein; Region: YqfQ; pfam14181 499229002949 Helix-turn-helix domains; Region: HTH; cl00088 499229002950 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 499229002951 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 499229002952 DNA binding site [nucleotide binding] 499229002953 Int/Topo IB signature motif; other site 499229002954 active site 499229002955 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 499229002956 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 499229002957 SmpB-tmRNA interface; other site 499229002958 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 499229002959 THUMP domain; Region: THUMP; cl12076 499229002960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229002961 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 499229002962 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229002963 Beta-Casp domain; Region: Beta-Casp; cl12567 499229002964 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 499229002965 Small, acid-soluble spore protein I; Region: SSPI; cl07940 499229002966 PAP2_like_3 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria and archaea, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_3; cd03393 499229002967 active site 499229002968 hypothetical protein; Validated; Region: PRK07682 499229002969 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 499229002970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229002971 homodimer interface [polypeptide binding]; other site 499229002972 catalytic residue [active] 499229002973 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 499229002974 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 499229002975 conserved cys residue [active] 499229002976 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 499229002977 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 499229002978 dimerization interface [polypeptide binding]; other site 499229002979 ATP binding site [chemical binding]; other site 499229002980 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 499229002981 dimerization interface [polypeptide binding]; other site 499229002982 ATP binding site [chemical binding]; other site 499229002983 amidophosphoribosyltransferase; Provisional; Region: PRK05793 499229002984 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 499229002985 active site 499229002986 tetramer interface [polypeptide binding]; other site 499229002987 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229002988 active site 499229002989 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 499229002990 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 499229002991 dimerization interface [polypeptide binding]; other site 499229002992 putative ATP binding site [chemical binding]; other site 499229002993 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 499229002994 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 499229002995 active site 499229002996 substrate binding site [chemical binding]; other site 499229002997 cosubstrate binding site; other site 499229002998 catalytic site [active] 499229002999 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 499229003000 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 499229003001 purine monophosphate binding site [chemical binding]; other site 499229003002 dimer interface [polypeptide binding]; other site 499229003003 putative catalytic residues [active] 499229003004 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 499229003005 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 499229003006 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 499229003007 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 499229003008 ATP-grasp domain; Region: ATP-grasp_4; cl03087 499229003009 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 499229003010 Rubrerythrin [Energy production and conversion]; Region: COG1592 499229003011 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 499229003012 binuclear metal center [ion binding]; other site 499229003013 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 499229003014 iron binding site [ion binding]; other site 499229003015 dihydrodipicolinate reductase; Provisional; Region: PRK00048 499229003016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003017 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 499229003018 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 499229003019 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 499229003020 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 499229003021 putative dimer interface [polypeptide binding]; other site 499229003022 active site pocket [active] 499229003023 putative cataytic base [active] 499229003024 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 499229003025 Competence protein; Region: Competence; cl00471 499229003026 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229003027 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 499229003028 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 499229003029 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 499229003030 Membrane protein of unknown function; Region: DUF360; cl00850 499229003031 Germination protease; Region: Peptidase_A25; cl04057 499229003032 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 499229003033 stage II sporulation protein P; Region: spore_II_P; TIGR02867 499229003034 GTP-binding protein LepA; Provisional; Region: PRK05433 499229003035 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 499229003036 G1 box; other site 499229003037 putative GEF interaction site [polypeptide binding]; other site 499229003038 GTP/Mg2+ binding site [chemical binding]; other site 499229003039 Switch I region; other site 499229003040 G2 box; other site 499229003041 G3 box; other site 499229003042 Switch II region; other site 499229003043 G4 box; other site 499229003044 G5 box; other site 499229003045 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 499229003046 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 499229003047 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 499229003048 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 499229003049 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 499229003050 FeS/SAM binding site; other site 499229003051 HemN C-terminal domain; Region: HemN_C; pfam06969 499229003052 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 499229003053 Helix-turn-helix domains; Region: HTH; cl00088 499229003054 HrcA protein C terminal domain; Region: HrcA; pfam01628 499229003055 chaperonin families, type I and type II. 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. There are 2 main chaperonin groups. The...; Region: chaperonin_type_I_II; cd00309 499229003056 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 499229003057 ATP/Mg binding site [chemical binding]; other site 499229003058 ring oligomerisation interface [polypeptide binding]; other site 499229003059 hinge regions; other site 499229003060 stacking interactions; other site 499229003061 heat shock protein GrpE; Provisional; Region: PRK14140 499229003062 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 499229003063 dimer interface [polypeptide binding]; other site 499229003064 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 499229003065 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 499229003066 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 499229003067 ATP binding site [chemical binding]; other site 499229003068 profilin binding site; other site 499229003069 ATP synthase archaeal, H subunit; Region: AhaH; TIGR02926 499229003070 chaperone protein DnaJ; Provisional; Region: PRK10767 499229003071 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 499229003072 HSP70 interaction site [polypeptide binding]; other site 499229003073 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 499229003074 substrate binding site [polypeptide binding]; other site 499229003075 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 499229003076 Zn binding sites [ion binding]; other site 499229003077 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 499229003078 dimer interface [polypeptide binding]; other site 499229003079 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 499229003080 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 499229003081 S-adenosylmethionine binding site [chemical binding]; other site 499229003082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 499229003083 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 499229003084 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 499229003085 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 499229003086 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 499229003087 FeS/SAM binding site; other site 499229003088 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 499229003089 nucleotide binding site/active site [active] 499229003090 HIT family signature motif; other site 499229003091 catalytic residue [active] 499229003092 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 499229003093 GatB domain; Region: GatB_Yqey; cl11497 499229003094 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 499229003095 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 499229003096 dimer interface [polypeptide binding]; other site 499229003097 active site residues [active] 499229003098 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 499229003099 YabP family; Region: YabP; cl06766 499229003100 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 499229003101 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 499229003102 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 499229003103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003104 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 499229003105 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 499229003106 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229003107 Zn2+ binding site [ion binding]; other site 499229003108 Mg2+ binding site [ion binding]; other site 499229003109 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 499229003110 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 499229003111 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 499229003112 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 499229003113 Recombination protein O N terminal; Region: RecO_N; cl15812 499229003114 Recombination protein O C terminal; Region: RecO_C; pfam02565 499229003115 Helix-turn-helix domains; Region: HTH; cl00088 499229003116 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 499229003117 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 499229003118 pyruvate phosphate dikinase; Provisional; Region: PRK09279 499229003119 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 499229003120 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 499229003121 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 499229003122 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 499229003123 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229003124 Zn2+ binding site [ion binding]; other site 499229003125 Mg2+ binding site [ion binding]; other site 499229003126 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 499229003127 DNA primase; Validated; Region: dnaG; PRK05667 499229003128 CHC2 zinc finger; Region: zf-CHC2; cl15369 499229003129 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 499229003130 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 499229003131 active site 499229003132 metal binding site [ion binding]; metal-binding site 499229003133 interdomain interaction site; other site 499229003134 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 499229003135 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 499229003136 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 499229003137 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 499229003138 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229003139 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 499229003140 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229003141 DNA binding residues [nucleotide binding] 499229003142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003143 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 499229003144 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 499229003145 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 499229003146 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 499229003147 Putative zinc ribbon domain; Region: DUF164; pfam02591 499229003148 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 499229003149 RNA/DNA hybrid binding site [nucleotide binding]; other site 499229003150 active site 499229003151 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; cl15774 499229003152 octamerization interface [polypeptide binding]; other site 499229003153 diferric-oxygen binding site [ion binding]; other site 499229003154 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 499229003155 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 499229003156 FeS/SAM binding site; other site 499229003157 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 499229003158 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 499229003159 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 499229003160 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 499229003161 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 499229003162 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 499229003163 cell division protein MraZ; Reviewed; Region: PRK00326 499229003164 MraZ protein; Region: MraZ; pfam02381 499229003165 MraZ protein; Region: MraZ; pfam02381 499229003166 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 499229003167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003168 Septum formation initiator; Region: DivIC; cl11433 499229003169 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 499229003170 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 499229003171 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 499229003172 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 499229003173 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 499229003174 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 499229003175 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 499229003176 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 499229003177 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 499229003178 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 499229003179 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 499229003180 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 499229003181 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 499229003182 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 499229003183 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 499229003184 Mg++ binding site [ion binding]; other site 499229003185 putative catalytic motif [active] 499229003186 putative substrate binding site [chemical binding]; other site 499229003187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003188 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 499229003189 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 499229003190 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 499229003191 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 499229003192 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 499229003193 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 499229003194 active site 499229003195 homodimer interface [polypeptide binding]; other site 499229003196 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 499229003197 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 499229003198 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 499229003199 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 499229003200 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 499229003201 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 499229003202 hinge; other site 499229003203 active site 499229003204 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 499229003205 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 499229003206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 499229003207 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 499229003208 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 499229003209 cell division protein FtsA; Region: ftsA; TIGR01174 499229003210 Cell division protein FtsA; Region: FtsA; cl11496 499229003211 Cell division protein FtsA; Region: FtsA; cl11496 499229003212 cell division protein FtsZ; Validated; Region: PRK09330 499229003213 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 499229003214 nucleotide binding site [chemical binding]; other site 499229003215 SulA interaction site; other site 499229003216 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 499229003217 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 499229003218 sporulation sigma factor SigE; Reviewed; Region: PRK08301 499229003219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229003220 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229003221 DNA binding residues [nucleotide binding] 499229003222 sporulation sigma factor SigG; Reviewed; Region: PRK08215 499229003223 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229003224 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 499229003225 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229003226 DNA binding residues [nucleotide binding] 499229003227 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 produce...; Region: PRCH; cl09959 499229003228 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 499229003229 ATP cone domain; Region: ATP-cone; pfam03477 499229003230 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 499229003231 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 499229003232 FeS/SAM binding site; other site 499229003233 Protein of unknown function (DUF1614); Region: DUF1614; cl15407 499229003234 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 499229003235 stage II sporulation protein P; Region: spore_II_P; TIGR02867 499229003236 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 499229003237 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 499229003238 GTP-binding protein Der; Reviewed; Region: PRK00093 499229003239 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 499229003240 G1 box; other site 499229003241 GTP/Mg2+ binding site [chemical binding]; other site 499229003242 Switch I region; other site 499229003243 G2 box; other site 499229003244 Switch II region; other site 499229003245 G3 box; other site 499229003246 G4 box; other site 499229003247 G5 box; other site 499229003248 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 499229003249 G1 box; other site 499229003250 GTP/Mg2+ binding site [chemical binding]; other site 499229003251 Switch I region; other site 499229003252 G2 box; other site 499229003253 G3 box; other site 499229003254 Switch II region; other site 499229003255 G4 box; other site 499229003256 G5 box; other site 499229003257 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 499229003258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003259 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 499229003260 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 499229003261 Acylphosphatase; Region: Acylphosphatase; cl00551 499229003262 recombination factor protein RarA; Reviewed; Region: PRK13342 499229003263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229003264 Walker A motif; other site 499229003265 ATP binding site [chemical binding]; other site 499229003266 Walker B motif; other site 499229003267 arginine finger; other site 499229003268 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 499229003269 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 499229003270 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 499229003271 active site 499229003272 phosphorylation site [posttranslational modification] 499229003273 intermolecular recognition site; other site 499229003274 dimerization interface [polypeptide binding]; other site 499229003275 CheB methylesterase; Region: CheB_methylest; pfam01339 499229003276 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 499229003277 putative active site pocket [active] 499229003278 cleavage site 499229003279 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 499229003280 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 499229003281 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 499229003282 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 499229003283 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 499229003284 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 499229003285 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 499229003286 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 499229003287 NAD synthase; Region: NAD_synthase; pfam02540 499229003288 homodimer interface [polypeptide binding]; other site 499229003289 NAD binding pocket [chemical binding]; other site 499229003290 ATP binding pocket [chemical binding]; other site 499229003291 Mg binding site [ion binding]; other site 499229003292 active-site loop [active] 499229003293 Transcriptional regulator; Region: Transcrip_reg; cl00361 499229003294 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 499229003295 active site 499229003296 putative DNA-binding cleft [nucleotide binding]; other site 499229003297 dimer interface [polypeptide binding]; other site 499229003298 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 499229003299 RuvA N terminal domain; Region: RuvA_N; pfam01330 499229003300 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 499229003301 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 499229003302 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 499229003303 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229003304 Walker A motif; other site 499229003305 ATP binding site [chemical binding]; other site 499229003306 Walker B motif; other site 499229003307 arginine finger; other site 499229003308 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 499229003309 Stage II sporulation protein; Region: SpoIID; pfam08486 499229003310 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 499229003311 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 499229003312 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 499229003313 Transporter associated domain; Region: CorC_HlyC; cl08393 499229003314 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 499229003315 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 499229003316 Preprotein translocase subunit; Region: YajC; cl00806 499229003317 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 499229003318 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 499229003319 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 499229003320 Protein export membrane protein; Region: SecD_SecF; cl14618 499229003321 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 499229003322 Protein export membrane protein; Region: SecD_SecF; cl14618 499229003323 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 499229003324 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 499229003325 Helix-turn-helix domains; Region: HTH; cl00088 499229003326 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 499229003327 active site 2 [active] 499229003328 active site 1 [active] 499229003329 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 499229003330 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 499229003331 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 499229003332 dimer interface [polypeptide binding]; other site 499229003333 active site 499229003334 CoA binding pocket [chemical binding]; other site 499229003335 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 499229003336 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 499229003337 FMN binding site [chemical binding]; other site 499229003338 substrate binding site [chemical binding]; other site 499229003339 putative catalytic residue [active] 499229003340 Acyl transferase domain; Region: Acyl_transf_1; cl08282 499229003341 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 499229003342 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 499229003343 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 499229003344 NAD(P) binding site [chemical binding]; other site 499229003345 homotetramer interface [polypeptide binding]; other site 499229003346 homodimer interface [polypeptide binding]; other site 499229003347 active site 499229003348 Phosphopantetheine attachment site; Region: PP-binding; cl09936 499229003349 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 499229003350 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 499229003351 dimer interface [polypeptide binding]; other site 499229003352 active site 499229003353 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 499229003354 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 499229003355 dimerization interface [polypeptide binding]; other site 499229003356 active site 499229003357 metal binding site [ion binding]; metal-binding site 499229003358 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 499229003359 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 499229003360 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 499229003361 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 499229003362 Walker A/P-loop; other site 499229003363 ATP binding site [chemical binding]; other site 499229003364 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 499229003365 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 499229003366 Q-loop/lid; other site 499229003367 ABC transporter signature motif; other site 499229003368 Walker B; other site 499229003369 D-loop; other site 499229003370 H-loop/switch region; other site 499229003371 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 499229003372 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 499229003373 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 499229003374 P loop; other site 499229003375 GTP binding site [chemical binding]; other site 499229003376 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229003377 signal recognition particle protein; Provisional; Region: PRK10867 499229003378 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 499229003379 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 499229003380 P loop; other site 499229003381 GTP binding site [chemical binding]; other site 499229003382 Signal peptide binding domain; Region: SRP_SPB; pfam02978 499229003383 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 499229003384 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 499229003385 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 that...; Region: KH-I; cl00098 499229003386 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 499229003387 RimM N-terminal domain; Region: RimM; pfam01782 499229003388 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 produce...; Region: PRCH; cl09959 499229003389 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 499229003390 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 499229003391 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 499229003392 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 499229003393 GTP/Mg2+ binding site [chemical binding]; other site 499229003394 G4 box; other site 499229003395 G5 box; other site 499229003396 G1 box; other site 499229003397 Switch I region; other site 499229003398 G2 box; other site 499229003399 G3 box; other site 499229003400 Switch II region; other site 499229003401 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 499229003402 RNA/DNA hybrid binding site [nucleotide binding]; other site 499229003403 active site 499229003404 Restriction endonuclease; Region: Mrr_cat; cl00516 499229003405 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 499229003406 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 499229003407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003408 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 499229003409 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 499229003410 homodimer interface [polypeptide binding]; other site 499229003411 Walker A motif; other site 499229003412 ATP binding site [chemical binding]; other site 499229003413 hydroxycobalamin binding site [chemical binding]; other site 499229003414 Walker B motif; other site 499229003415 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 499229003416 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 499229003417 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 499229003418 DNA topoisomerase I; Validated; Region: PRK05582 499229003419 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 499229003420 active site 499229003421 interdomain interaction site; other site 499229003422 putative metal-binding site [ion binding]; other site 499229003423 nucleotide binding site [chemical binding]; other site 499229003424 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 499229003425 domain I; other site 499229003426 DNA binding groove [nucleotide binding] 499229003427 phosphate binding site [ion binding]; other site 499229003428 domain II; other site 499229003429 domain III; other site 499229003430 nucleotide binding site [chemical binding]; other site 499229003431 catalytic site [active] 499229003432 domain IV; other site 499229003433 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 499229003434 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 499229003435 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 499229003436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003437 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 499229003438 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 499229003439 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 499229003440 Int/Topo IB signature motif; other site 499229003441 active site 499229003442 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 499229003443 active site 499229003444 HslU subunit interaction site [polypeptide binding]; other site 499229003445 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 499229003446 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229003447 Walker A motif; other site 499229003448 ATP binding site [chemical binding]; other site 499229003449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003450 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 499229003451 transcriptional repressor CodY; Validated; Region: PRK04158 499229003452 CodY GAF-like domain; Region: CodY; pfam06018 499229003453 Helix-turn-helix domains; Region: HTH; cl00088 499229003454 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 499229003455 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 499229003456 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 499229003457 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 499229003458 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 499229003459 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 499229003460 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 499229003461 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 499229003462 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 499229003463 FliG C-terminal domain; Region: FliG_C; pfam01706 499229003464 Flagellar assembly protein FliH; Region: FliH; pfam02108 499229003465 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 499229003466 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 499229003467 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 499229003468 Walker A motif/ATP binding site; other site 499229003469 Walker B motif; other site 499229003470 MgtE intracellular N domain; Region: MgtE_N; cl15244 499229003471 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 499229003472 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 499229003473 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 499229003474 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 499229003475 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 499229003476 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 499229003477 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 499229003478 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 499229003479 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 499229003480 Flagellar protein (FlbD); Region: FlbD; cl00683 499229003481 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 499229003482 flagellar motor protein MotP; Reviewed; Region: PRK06926 499229003483 flagellar motor protein MotS; Reviewed; Region: PRK06925 499229003484 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 499229003485 ligand binding site [chemical binding]; other site 499229003486 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 499229003487 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 499229003488 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 499229003489 flagellar motor switch protein; Validated; Region: PRK08119 499229003490 Chemotaxis phosphatase CheX; Region: CheX; cl15816 499229003491 Chemotaxis phosphatase CheX; Region: CheX; cl15816 499229003492 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 499229003493 Response regulator receiver domain; Region: Response_reg; pfam00072 499229003494 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 499229003495 active site 499229003496 phosphorylation site [posttranslational modification] 499229003497 intermolecular recognition site; other site 499229003498 dimerization interface [polypeptide binding]; other site 499229003499 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 499229003500 FliP family; Region: FliP; cl00593 499229003501 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 499229003502 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 499229003503 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 499229003504 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 499229003505 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 499229003506 FHIPEP family; Region: FHIPEP; pfam00771 499229003507 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 499229003508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003509 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 499229003510 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 499229003511 P-loop; other site 499229003512 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 499229003513 Flagellar protein YcgR; Region: YcgR_2; pfam12945 499229003514 PilZ domain; Region: PilZ; cl01260 499229003515 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 499229003516 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 499229003517 putative binding surface; other site 499229003518 active site 499229003519 P2 response regulator binding domain; Region: P2; pfam07194 499229003520 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 499229003521 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 499229003522 ATP binding site [chemical binding]; other site 499229003523 Mg2+ binding site [ion binding]; other site 499229003524 G-X-G motif; other site 499229003525 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 499229003526 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 499229003527 putative CheA interaction surface; other site 499229003528 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 499229003529 Chemotaxis phosphatase CheX; Region: CheX; cl15816 499229003530 CheD chemotactic sensory transduction; Region: CheD; cl00810 499229003531 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 499229003532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229003533 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229003534 DNA binding residues [nucleotide binding] 499229003535 Protein of unknown function (DUF342); Region: DUF342; pfam03961 499229003536 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 499229003537 Domain of unknown function DUF20; Region: UPF0118; pfam01594 499229003538 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 499229003539 rRNA interaction site [nucleotide binding]; other site 499229003540 S8 interaction site; other site 499229003541 putative laminin-1 binding site; other site 499229003542 elongation factor Ts; Reviewed; Region: tsf; PRK12332 499229003543 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 499229003544 Elongation factor TS; Region: EF_TS; pfam00889 499229003545 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 499229003546 putative nucleotide binding site [chemical binding]; other site 499229003547 uridine monophosphate binding site [chemical binding]; other site 499229003548 homohexameric interface [polypeptide binding]; other site 499229003549 ribosome recycling factor; Reviewed; Region: frr; PRK00083 499229003550 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 499229003551 hinge region; other site 499229003552 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 499229003553 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 499229003554 catalytic residue [active] 499229003555 putative FPP diphosphate binding site; other site 499229003556 putative FPP binding hydrophobic cleft; other site 499229003557 dimer interface [polypeptide binding]; other site 499229003558 putative IPP diphosphate binding site; other site 499229003559 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 499229003560 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 499229003561 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 499229003562 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 499229003563 active site 499229003564 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 499229003565 protein binding site [polypeptide binding]; other site 499229003566 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 499229003567 putative substrate binding region [chemical binding]; other site 499229003568 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 499229003569 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 499229003570 metal binding site [ion binding]; metal-binding site 499229003571 substrate binding pocket [chemical binding]; other site 499229003572 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 499229003573 prolyl-tRNA synthetase; Provisional; Region: PRK08661 499229003574 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 of...; Region: ProRS_core_arch_euk; cd00778 499229003575 dimer interface [polypeptide binding]; other site 499229003576 motif 1; other site 499229003577 active site 499229003578 motif 2; other site 499229003579 motif 3; other site 499229003580 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 499229003581 anticodon binding site; other site 499229003582 zinc-binding site [ion binding]; other site 499229003583 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 499229003584 Ligand binding site; other site 499229003585 Putative Catalytic site; other site 499229003586 DXD motif; other site 499229003587 DNA polymerase III PolC; Validated; Region: polC; PRK00448 499229003588 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 499229003589 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 499229003590 generic binding surface II; other site 499229003591 generic binding surface I; other site 499229003592 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 499229003593 active site 499229003594 substrate binding site [chemical binding]; other site 499229003595 catalytic site [active] 499229003596 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 499229003597 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 499229003598 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 of...; Region: Sm_like; cl00259 499229003599 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 499229003600 Sm1 motif; other site 499229003601 predicted subunit interaction site [polypeptide binding]; other site 499229003602 RNA binding pocket [nucleotide binding]; other site 499229003603 Sm2 motif; other site 499229003604 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 499229003605 NusA N-terminal domain; Region: NusA_N; pfam08529 499229003606 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 499229003607 RNA binding site [nucleotide binding]; other site 499229003608 homodimer interface [polypeptide binding]; other site 499229003609 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 that...; Region: KH-I; cl00098 499229003610 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 499229003611 G-X-X-G motif; other site 499229003612 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 499229003613 putative RNA binding cleft [nucleotide binding]; other site 499229003614 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 499229003615 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 499229003616 translation initiation factor IF-2; Region: IF-2; TIGR00487 499229003617 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 499229003618 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 499229003619 G1 box; other site 499229003620 putative GEF interaction site [polypeptide binding]; other site 499229003621 GTP/Mg2+ binding site [chemical binding]; other site 499229003622 Switch I region; other site 499229003623 G2 box; other site 499229003624 G3 box; other site 499229003625 Switch II region; other site 499229003626 G4 box; other site 499229003627 G5 box; other site 499229003628 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 499229003629 Translation-initiation factor 2; Region: IF-2; pfam11987 499229003630 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 499229003631 Ribosome-binding factor A; Region: RBFA; cl00542 499229003632 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 499229003633 DHH family; Region: DHH; pfam01368 499229003634 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 499229003635 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 specific...; Region: PseudoU_synth_EcTruB; cd02573 499229003636 RNA binding site [nucleotide binding]; other site 499229003637 active site 499229003638 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 499229003639 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 499229003640 active site 499229003641 Riboflavin kinase; Region: Flavokinase; cl03312 499229003642 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 499229003643 16S/18S rRNA binding site [nucleotide binding]; other site 499229003644 S13e-L30e interaction site [polypeptide binding]; other site 499229003645 25S rRNA binding site [nucleotide binding]; other site 499229003646 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 499229003647 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 499229003648 RNase E interface [polypeptide binding]; other site 499229003649 trimer interface [polypeptide binding]; other site 499229003650 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 499229003651 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 499229003652 RNase E interface [polypeptide binding]; other site 499229003653 trimer interface [polypeptide binding]; other site 499229003654 active site 499229003655 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 499229003656 putative nucleic acid binding region [nucleotide binding]; other site 499229003657 G-X-X-G motif; other site 499229003658 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 499229003659 RNA binding site [nucleotide binding]; other site 499229003660 domain interface; other site 499229003661 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 499229003662 NodB motif; other site 499229003663 alanine racemase; Reviewed; Region: alr; PRK00053 499229003664 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 499229003665 active site 499229003666 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 499229003667 dimer interface [polypeptide binding]; other site 499229003668 substrate binding site [chemical binding]; other site 499229003669 catalytic residues [active] 499229003670 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 499229003671 trimer interface [polypeptide binding]; other site 499229003672 active site 499229003673 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 produce...; Region: PRCH; cl09959 499229003674 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 499229003675 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229003676 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 499229003677 Clp protease; Region: CLP_protease; pfam00574 499229003678 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 499229003679 active site 499229003680 YlzJ-like protein; Region: YlzJ; pfam14035 499229003681 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003682 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 499229003683 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 499229003684 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229003685 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 499229003686 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 499229003687 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 499229003688 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 499229003689 FeS/SAM binding site; other site 499229003690 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 499229003691 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229003692 Walker A motif; other site 499229003693 ATP binding site [chemical binding]; other site 499229003694 Walker B motif; other site 499229003695 arginine finger; other site 499229003696 Peptidase family M41; Region: Peptidase_M41; pfam01434 499229003697 competence damage-inducible protein A; Provisional; Region: PRK00549 499229003698 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 499229003699 putative MPT binding site; other site 499229003700 Competence-damaged protein; Region: CinA; cl00666 499229003701 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 499229003702 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 499229003703 recombinase A; Provisional; Region: recA; PRK09354 499229003704 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 499229003705 hexamer interface [polypeptide binding]; other site 499229003706 Walker A motif; other site 499229003707 ATP binding site [chemical binding]; other site 499229003708 Walker B motif; other site 499229003709 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 499229003710 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 499229003711 active site 499229003712 metal binding site [ion binding]; metal-binding site 499229003713 DNA binding site [nucleotide binding] 499229003714 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 499229003715 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003716 Walker A/P-loop; other site 499229003717 ATP binding site [chemical binding]; other site 499229003718 DNA replication protein DnaC; Validated; Region: PRK06835 499229003719 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 499229003720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003721 ABC transporter signature motif; other site 499229003722 Walker B; other site 499229003723 D-loop; other site 499229003724 H-loop/switch region; other site 499229003725 phosphodiesterase; Provisional; Region: PRK12704 499229003726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229003727 Zn2+ binding site [ion binding]; other site 499229003728 Mg2+ binding site [ion binding]; other site 499229003729 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 499229003730 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 499229003731 putative active site [active] 499229003732 metal binding site [ion binding]; metal-binding site 499229003733 homodimer binding site [polypeptide binding]; other site 499229003734 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 499229003735 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 499229003736 Ferredoxin [Energy production and conversion]; Region: COG1146 499229003737 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 499229003738 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 499229003739 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 499229003740 dimer interface [polypeptide binding]; other site 499229003741 PYR/PP interface [polypeptide binding]; other site 499229003742 TPP binding site [chemical binding]; other site 499229003743 substrate binding site [chemical binding]; other site 499229003744 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 499229003745 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 499229003746 TPP-binding site [chemical binding]; other site 499229003747 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 499229003748 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 499229003749 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 499229003750 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 499229003751 NAD(P) binding site [chemical binding]; other site 499229003752 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 499229003753 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 499229003754 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 499229003755 B12 binding site [chemical binding]; other site 499229003756 cobalt ligand [ion binding]; other site 499229003757 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 499229003758 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 499229003759 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 499229003760 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 499229003761 dimer interface [polypeptide binding]; other site 499229003762 substrate binding site [chemical binding]; other site 499229003763 metal binding site [ion binding]; metal-binding site 499229003764 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 499229003765 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 499229003766 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 499229003767 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 499229003768 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 499229003769 carboxyltransferase (CT) interaction site; other site 499229003770 biotinylation site [posttranslational modification]; other site 499229003771 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 499229003772 oxaloacetate decarboxylase; Provisional; Region: PRK12331 499229003773 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 499229003774 active site 499229003775 catalytic residues [active] 499229003776 metal binding site [ion binding]; metal-binding site 499229003777 homodimer binding site [polypeptide binding]; other site 499229003778 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 499229003779 VanW like protein; Region: VanW; pfam04294 499229003780 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229003781 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 499229003782 Fe-S cluster binding site [ion binding]; other site 499229003783 active site 499229003784 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 499229003785 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 499229003786 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 499229003787 FeS/SAM binding site; other site 499229003788 TRAM domain; Region: TRAM; cl01282 499229003789 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 499229003790 MutS domain I; Region: MutS_I; pfam01624 499229003791 MutS domain II; Region: MutS_II; pfam05188 499229003792 MutS family domain IV; Region: MutS_IV; pfam05190 499229003793 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 499229003794 Walker A/P-loop; other site 499229003795 ATP binding site [chemical binding]; other site 499229003796 Q-loop/lid; other site 499229003797 ABC transporter signature motif; other site 499229003798 Walker B; other site 499229003799 D-loop; other site 499229003800 H-loop/switch region; other site 499229003801 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 499229003802 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 499229003803 ATP binding site [chemical binding]; other site 499229003804 Mg2+ binding site [ion binding]; other site 499229003805 G-X-G motif; other site 499229003806 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 499229003807 ATP binding site [chemical binding]; other site 499229003808 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 499229003809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003810 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 499229003811 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 499229003812 Sm1 motif; other site 499229003813 intra - hexamer interaction site; other site 499229003814 inter - hexamer interaction site [polypeptide binding]; other site 499229003815 nucleotide binding pocket [chemical binding]; other site 499229003816 Sm2 motif; other site 499229003817 stage V sporulation protein K; Region: spore_V_K; TIGR02881 499229003818 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229003819 Walker A motif; other site 499229003820 ATP binding site [chemical binding]; other site 499229003821 Walker B motif; other site 499229003822 arginine finger; other site 499229003823 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003824 G1 box; other site 499229003825 GTP/Mg2+ binding site [chemical binding]; other site 499229003826 Switch I region; other site 499229003827 G3 box; other site 499229003828 Switch II region; other site 499229003829 G4 box; other site 499229003830 G5 box; other site 499229003831 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 499229003832 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 499229003833 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229003834 catalytic residue [active] 499229003835 LexA repressor; Validated; Region: PRK00215 499229003836 Helix-turn-helix domains; Region: HTH; cl00088 499229003837 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 499229003838 Catalytic site [active] 499229003839 aspartate aminotransferase; Provisional; Region: PRK05764 499229003840 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 499229003841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229003842 homodimer interface [polypeptide binding]; other site 499229003843 catalytic residue [active] 499229003844 hypothetical protein; Provisional; Region: PRK06851 499229003845 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229003846 Walker A motif; other site 499229003847 ATP binding site [chemical binding]; other site 499229003848 Walker B motif; other site 499229003849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229003850 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 499229003851 Survival protein SurE; Region: SurE; cl00448 499229003852 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229003853 binding surface 499229003854 TPR motif; other site 499229003855 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229003856 TPR repeat; Region: TPR_11; pfam13414 499229003857 binding surface 499229003858 TPR motif; other site 499229003859 TPR repeat; Region: TPR_11; pfam13414 499229003860 TPR repeat; Region: TPR_11; pfam13414 499229003861 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229003862 binding surface 499229003863 TPR motif; other site 499229003864 TPR repeat; Region: TPR_11; pfam13414 499229003865 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229003866 binding surface 499229003867 TPR motif; other site 499229003868 TPR repeat; Region: TPR_11; pfam13414 499229003869 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 499229003870 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 499229003871 oligomer interface [polypeptide binding]; other site 499229003872 active site 499229003873 metal binding site [ion binding]; metal-binding site 499229003874 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 499229003875 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 499229003876 oligomer interface [polypeptide binding]; other site 499229003877 active site 499229003878 metal binding site [ion binding]; metal-binding site 499229003879 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 499229003880 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 499229003881 oligomer interface [polypeptide binding]; other site 499229003882 active site 499229003883 metal binding site [ion binding]; metal-binding site 499229003884 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 499229003885 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 499229003886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003887 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 499229003888 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 499229003889 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 499229003890 homotetramer interface [polypeptide binding]; other site 499229003891 FMN binding site [chemical binding]; other site 499229003892 homodimer contacts [polypeptide binding]; other site 499229003893 putative active site [active] 499229003894 putative substrate binding site [chemical binding]; other site 499229003895 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 499229003896 LytB protein; Region: LYTB; cl00507 499229003897 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 499229003898 RNA binding site [nucleotide binding]; other site 499229003899 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 499229003900 RNA binding site [nucleotide binding]; other site 499229003901 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 499229003902 RNA binding site [nucleotide binding]; other site 499229003903 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 499229003904 RNA binding site [nucleotide binding]; other site 499229003905 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 499229003906 putative acyl-acceptor binding pocket; other site 499229003907 cytidylate kinase; Provisional; Region: cmk; PRK00023 499229003908 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 499229003909 CMP-binding site; other site 499229003910 The sites determining sugar specificity; other site 499229003911 flavoprotein, HI0933 family; Region: TIGR00275 499229003912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003913 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 499229003914 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 499229003915 Walker A/P-loop; other site 499229003916 ATP binding site [chemical binding]; other site 499229003917 Q-loop/lid; other site 499229003918 ABC transporter signature motif; other site 499229003919 Walker B; other site 499229003920 D-loop; other site 499229003921 H-loop/switch region; other site 499229003922 Arginase family; Region: Arginase; cl00306 499229003923 spermidine synthase; Provisional; Region: PRK00811 499229003924 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 499229003925 S-adenosylmethionine binding site [chemical binding]; other site 499229003926 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 499229003927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 499229003928 Coenzyme A binding pocket [chemical binding]; other site 499229003929 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 499229003930 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 499229003931 RNA binding surface [nucleotide binding]; other site 499229003932 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 499229003933 active site 499229003934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003935 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 499229003936 B12 binding site [chemical binding]; other site 499229003937 cobalt ligand [ion binding]; other site 499229003938 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 499229003939 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 499229003940 FCD domain; Region: FCD; cl11656 499229003941 Glucose inhibited division protein A; Region: GIDA; pfam01134 499229003942 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229003943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229003945 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 499229003946 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 499229003947 homotrimer interaction site [polypeptide binding]; other site 499229003948 putative active site [active] 499229003949 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 499229003950 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 499229003951 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 499229003952 ScpA/B protein; Region: ScpA_ScpB; cl00598 499229003953 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 499229003954 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 499229003955 active site 499229003956 HIGH motif; other site 499229003957 dimer interface [polypeptide binding]; other site 499229003958 KMSKS motif; other site 499229003959 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 499229003960 active site 499229003961 putative substrate binding region [chemical binding]; other site 499229003962 diaminopimelate decarboxylase; Region: lysA; TIGR01048 499229003963 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 499229003964 active site 499229003965 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 499229003966 substrate binding site [chemical binding]; other site 499229003967 catalytic residues [active] 499229003968 dimer interface [polypeptide binding]; other site 499229003969 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229003970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 499229003971 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 499229003972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 499229003973 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 499229003974 SpoVA protein; Region: SpoVA; cl04298 499229003975 stage V sporulation protein AD; Validated; Region: PRK08304 499229003976 stage V sporulation protein AD; Provisional; Region: PRK12404 499229003977 SpoVA protein; Region: SpoVA; cl04298 499229003978 Dodecin; Region: Dodecin; cl01328 499229003979 sporulation sigma factor SigF; Validated; Region: PRK05572 499229003980 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229003981 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 499229003982 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229003983 DNA binding residues [nucleotide binding] 499229003984 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 499229003985 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 499229003986 ATP binding site [chemical binding]; other site 499229003987 Mg2+ binding site [ion binding]; other site 499229003988 G-X-G motif; other site 499229003989 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 499229003990 anti sigma factor interaction site; other site 499229003991 regulatory phosphorylation site [posttranslational modification]; other site 499229003992 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 499229003993 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 499229003994 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 499229003995 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 499229003996 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 499229003997 Int/Topo IB signature motif; other site 499229003998 active site 499229003999 Integral membrane protein DUF95; Region: DUF95; cl00572 499229004000 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 499229004001 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 499229004002 DNA binding site [nucleotide binding] 499229004003 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 499229004004 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 499229004005 dimer interface [polypeptide binding]; other site 499229004006 ADP-ribose binding site [chemical binding]; other site 499229004007 active site 499229004008 nudix motif; other site 499229004009 metal binding site [ion binding]; metal-binding site 499229004010 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 499229004011 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 499229004012 active site 499229004013 phosphorylation site [posttranslational modification] 499229004014 intermolecular recognition site; other site 499229004015 dimerization interface [polypeptide binding]; other site 499229004016 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 499229004017 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 499229004018 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 499229004019 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 499229004020 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 499229004021 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, and...; Region: ABC_RecN; cd03241 499229004022 Walker A/P-loop; other site 499229004023 ATP binding site [chemical binding]; other site 499229004024 Q-loop/lid; other site 499229004025 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, and...; Region: ABC_RecN; cd03241 499229004026 ABC transporter signature motif; other site 499229004027 Walker B; other site 499229004028 D-loop; other site 499229004029 H-loop/switch region; other site 499229004030 arginine repressor; Provisional; Region: argR; PRK00441 499229004031 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 499229004032 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 499229004033 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 499229004034 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 499229004035 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 499229004036 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 499229004037 RNA binding surface [nucleotide binding]; other site 499229004038 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; cl15754 499229004039 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 499229004040 substrate binding pocket [chemical binding]; other site 499229004041 chain length determination region; other site 499229004042 substrate-Mg2+ binding site; other site 499229004043 catalytic residues [active] 499229004044 aspartate-rich region 1; other site 499229004045 active site lid residues [active] 499229004046 aspartate-rich region 2; other site 499229004047 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 499229004048 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 499229004049 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 499229004050 generic binding surface II; other site 499229004051 generic binding surface I; other site 499229004052 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 499229004053 putative RNA binding site [nucleotide binding]; other site 499229004054 Asp23 family; Region: Asp23; cl00574 499229004055 Asp23 family; Region: Asp23; cl00574 499229004056 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 499229004057 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 499229004058 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 499229004059 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 499229004060 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 499229004061 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 499229004062 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 499229004063 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 499229004064 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 499229004065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004066 Walker A motif; other site 499229004067 ATP binding site [chemical binding]; other site 499229004068 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 499229004069 elongation factor P; Validated; Region: PRK00529 499229004070 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 499229004071 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 499229004072 RNA binding site [nucleotide binding]; other site 499229004073 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 499229004074 RNA binding site [nucleotide binding]; other site 499229004075 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 499229004076 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 499229004077 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 499229004078 active site 499229004079 Pilus assembly protein, PilO; Region: PilO; cl01234 499229004080 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 499229004081 Late competence development protein ComFB; Region: ComFB; pfam10719 499229004082 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 499229004083 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 499229004084 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 499229004085 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 499229004086 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 499229004087 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 499229004088 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 499229004089 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 499229004090 Walker A motif; other site 499229004091 ATP binding site [chemical binding]; other site 499229004092 Walker B motif; other site 499229004093 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 499229004094 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 499229004095 active site 499229004096 motif I; other site 499229004097 motif II; other site 499229004098 sporulation sigma factor SigK; Reviewed; Region: PRK05803 499229004099 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229004100 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229004101 DNA binding residues [nucleotide binding] 499229004102 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 499229004103 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 499229004104 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 499229004105 YceG-like family; Region: YceG; pfam02618 499229004106 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 499229004107 dimerization interface [polypeptide binding]; other site 499229004108 QueT transporter; Region: QueT; cl01932 499229004109 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 499229004110 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 499229004111 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 499229004112 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 499229004113 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 499229004114 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 499229004115 ferric uptake regulator; Provisional; Region: fur; PRK09462 499229004116 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 499229004117 metal binding site 2 [ion binding]; metal-binding site 499229004118 putative DNA binding helix; other site 499229004119 metal binding site 1 [ion binding]; metal-binding site 499229004120 dimer interface [polypeptide binding]; other site 499229004121 structural Zn2+ binding site [ion binding]; other site 499229004122 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 499229004123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229004124 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 499229004125 putative L-serine binding site [chemical binding]; other site 499229004126 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 499229004127 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; cl00243 499229004128 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 499229004129 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 499229004130 active site 499229004131 catalytic tetrad [active] 499229004132 ferredoxin; Validated; Region: PRK07118 499229004133 4Fe-4S binding domain; Region: Fer4; cl02805 499229004134 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 499229004135 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 499229004136 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 of...; Region: AlaRS_core; cd00673 499229004137 motif 1; other site 499229004138 active site 499229004139 motif 2; other site 499229004140 motif 3; other site 499229004141 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 499229004142 DHHA1 domain; Region: DHHA1; pfam02272 499229004143 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 499229004144 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 499229004145 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 499229004146 putative ATP binding site [chemical binding]; other site 499229004147 putative substrate interface [chemical binding]; other site 499229004148 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 499229004149 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 499229004150 dimer interface [polypeptide binding]; other site 499229004151 anticodon binding site; other site 499229004152 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 499229004153 homodimer interface [polypeptide binding]; other site 499229004154 motif 1; other site 499229004155 active site 499229004156 motif 2; other site 499229004157 GAD domain; Region: GAD; pfam02938 499229004158 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 499229004159 motif 3; other site 499229004160 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 499229004161 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 499229004162 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 499229004163 protein binding site [polypeptide binding]; other site 499229004164 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229004165 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 499229004166 putative active site [active] 499229004167 dimerization interface [polypeptide binding]; other site 499229004168 putative tRNAtyr binding site [nucleotide binding]; other site 499229004169 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 499229004170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 499229004171 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 499229004172 synthetase active site [active] 499229004173 NTP binding site [chemical binding]; other site 499229004174 metal binding site [ion binding]; metal-binding site 499229004175 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 499229004176 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 499229004177 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 499229004178 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229004179 active site 499229004180 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 499229004181 DHH family; Region: DHH; pfam01368 499229004182 DHHA1 domain; Region: DHHA1; pfam02272 499229004183 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 499229004184 metal ion-dependent adhesion site (MIDAS); other site 499229004185 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 499229004186 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229004187 Walker B motif; other site 499229004188 arginine finger; other site 499229004189 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 499229004190 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 499229004191 Acetokinase family; Region: Acetate_kinase; cl01029 499229004192 propionate/acetate kinase; Provisional; Region: PRK12379 499229004193 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 499229004194 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 499229004195 hypothetical protein; Provisional; Region: PRK13670 499229004196 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 499229004197 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 499229004198 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 499229004199 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 499229004200 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 499229004201 Nucleoside recognition; Region: Gate; cl00486 499229004202 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 499229004203 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 499229004204 active site 499229004205 (T/H)XGH motif; other site 499229004206 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 499229004207 S-adenosylmethionine binding site [chemical binding]; other site 499229004208 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 499229004209 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 499229004210 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 499229004211 ssDNA binding site; other site 499229004212 generic binding surface II; other site 499229004213 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 499229004214 ATP binding site [chemical binding]; other site 499229004215 putative Mg++ binding site [ion binding]; other site 499229004216 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 499229004217 nucleotide binding region [chemical binding]; other site 499229004218 ATP-binding site [chemical binding]; other site 499229004219 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 499229004220 DAK2 domain; Region: Dak2; cl03685 499229004221 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 499229004222 Asp23 family; Region: Asp23; cl00574 499229004223 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 499229004224 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 499229004225 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 499229004226 substrate binding site [chemical binding]; other site 499229004227 hexamer interface [polypeptide binding]; other site 499229004228 metal binding site [ion binding]; metal-binding site 499229004229 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 499229004230 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 499229004231 active site 499229004232 ATP binding site [chemical binding]; other site 499229004233 substrate binding site [chemical binding]; other site 499229004234 activation loop (A-loop); other site 499229004235 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 499229004236 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 499229004237 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 499229004238 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 499229004239 Protein phosphatase 2C; Region: PP2C; pfam00481 499229004240 active site 499229004241 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 499229004242 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 499229004243 FeS/SAM binding site; other site 499229004244 16S rRNA methyltransferase B; Provisional; Region: PRK14902 499229004245 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 499229004246 putative RNA binding site [nucleotide binding]; other site 499229004247 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 499229004248 S-adenosylmethionine binding site [chemical binding]; other site 499229004249 Protein of unknown function DUF116; Region: DUF116; cl00800 499229004250 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 499229004251 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 499229004252 putative active site [active] 499229004253 substrate binding site [chemical binding]; other site 499229004254 putative cosubstrate binding site; other site 499229004255 catalytic site [active] 499229004256 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 499229004257 substrate binding site [chemical binding]; other site 499229004258 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 499229004259 active site 499229004260 catalytic residues [active] 499229004261 metal binding site [ion binding]; metal-binding site 499229004262 primosome assembly protein PriA; Validated; Region: PRK05580 499229004263 Helix-turn-helix domains; Region: HTH; cl00088 499229004264 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 499229004265 ATP binding site [chemical binding]; other site 499229004266 putative Mg++ binding site [ion binding]; other site 499229004267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004268 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 499229004269 Flavoprotein; Region: Flavoprotein; cl08021 499229004270 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 499229004271 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 499229004272 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 499229004273 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 499229004274 catalytic site [active] 499229004275 G-X2-G-X-G-K; other site 499229004276 Domain of unknown function (DUF370); Region: DUF370; cl00898 499229004277 hypothetical protein; Provisional; Region: PRK11820 499229004278 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 499229004279 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 499229004280 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 499229004281 Domain of unknown function (DUF814); Region: DUF814; pfam05670 499229004282 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229004283 active site 499229004284 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 499229004285 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 499229004286 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 499229004287 active site 499229004288 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 499229004289 lipoprotein signal peptidase; Provisional; Region: PRK14787 499229004290 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 499229004291 DivIVA protein; Region: DivIVA; pfam05103 499229004292 DivIVA domain; Region: DivI1A_domain; TIGR03544 499229004293 YGGT family; Region: YGGT; cl00508 499229004294 Protein of unknown function (DUF552); Region: DUF552; cl00775 499229004295 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 499229004296 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 499229004297 catalytic residue [active] 499229004298 HlyD family secretion protein; Region: HlyD_2; pfam12700 499229004299 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229004300 homoserine kinase; Provisional; Region: PRK01212 499229004301 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 499229004302 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 499229004303 threonine synthase; Reviewed; Region: PRK06721 499229004304 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 499229004305 homodimer interface [polypeptide binding]; other site 499229004306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229004307 catalytic residue [active] 499229004308 homoserine dehydrogenase; Provisional; Region: PRK06349 499229004309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229004310 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 499229004311 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 499229004312 hypothetical protein; Provisional; Region: PRK04435 499229004313 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 499229004314 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 499229004315 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 499229004316 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 499229004317 minor groove reading motif; other site 499229004318 helix-hairpin-helix signature motif; other site 499229004319 substrate binding pocket [chemical binding]; other site 499229004320 active site 499229004321 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 499229004322 C-terminal peptidase (prc); Region: prc; TIGR00225 499229004323 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 499229004324 protein binding site [polypeptide binding]; other site 499229004325 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 499229004326 Catalytic dyad [active] 499229004327 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 499229004328 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 499229004329 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 499229004330 FMN binding site [chemical binding]; other site 499229004331 substrate binding site [chemical binding]; other site 499229004332 putative catalytic residue [active] 499229004333 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 499229004334 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 499229004335 substrate binding pocket [chemical binding]; other site 499229004336 chain length determination region; other site 499229004337 substrate-Mg2+ binding site; other site 499229004338 catalytic residues [active] 499229004339 aspartate-rich region 1; other site 499229004340 active site lid residues [active] 499229004341 aspartate-rich region 2; other site 499229004342 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 499229004343 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 499229004344 Walker A/P-loop; other site 499229004345 ATP binding site [chemical binding]; other site 499229004346 Q-loop/lid; other site 499229004347 ABC transporter signature motif; other site 499229004348 Walker B; other site 499229004349 D-loop; other site 499229004350 H-loop/switch region; other site 499229004351 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 499229004352 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229004353 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229004354 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 499229004355 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229004356 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 499229004357 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 499229004358 FtsX-like permease family; Region: FtsX; cl15850 499229004359 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 499229004360 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 499229004361 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 499229004362 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 499229004363 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 499229004364 HIGH motif; other site 499229004365 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 499229004366 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 499229004367 active site 499229004368 KMSKS motif; other site 499229004369 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 499229004370 tRNA binding surface [nucleotide binding]; other site 499229004371 anticodon binding site; other site 499229004372 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 499229004373 Bacitracin resistance protein BacA; Region: BacA; cl00858 499229004374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 499229004375 putative substrate translocation pore; other site 499229004376 SLBB domain; Region: SLBB; pfam10531 499229004377 comEA protein; Region: comE; TIGR01259 499229004378 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 499229004379 cobyric acid synthase; Provisional; Region: PRK00784 499229004380 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004381 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004382 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 499229004383 catalytic triad [active] 499229004384 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 499229004385 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 499229004386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004387 Walker A/P-loop; other site 499229004388 ATP binding site [chemical binding]; other site 499229004389 Q-loop/lid; other site 499229004390 ABC transporter signature motif; other site 499229004391 Walker B; other site 499229004392 D-loop; other site 499229004393 H-loop/switch region; other site 499229004394 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 499229004395 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 499229004396 HIGH motif; other site 499229004397 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 499229004398 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 499229004399 active site 499229004400 KMSKS motif; other site 499229004401 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 499229004402 tRNA binding surface [nucleotide binding]; other site 499229004403 Oligomerisation domain; Region: Oligomerisation; cl00519 499229004404 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 499229004405 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 499229004406 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 499229004407 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229004408 Zn2+ binding site [ion binding]; other site 499229004409 Mg2+ binding site [ion binding]; other site 499229004410 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 499229004411 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 499229004412 active site 499229004413 (T/H)XGH motif; other site 499229004414 GTPase CgtA; Reviewed; Region: obgE; PRK12297 499229004415 GTP1/OBG; Region: GTP1_OBG; pfam01018 499229004416 Obg GTPase; Region: Obg; cd01898 499229004417 G1 box; other site 499229004418 GTP/Mg2+ binding site [chemical binding]; other site 499229004419 Switch I region; other site 499229004420 G2 box; other site 499229004421 G3 box; other site 499229004422 Switch II region; other site 499229004423 G4 box; other site 499229004424 G5 box; other site 499229004425 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 499229004426 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 499229004427 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 499229004428 Protein of unknown function (DUF464); Region: DUF464; cl01080 499229004429 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 499229004430 germination protein YpeB; Region: spore_YpeB; TIGR02889 499229004431 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 499229004432 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 499229004433 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 499229004434 homodimer interface [polypeptide binding]; other site 499229004435 oligonucleotide binding site [chemical binding]; other site 499229004436 TRAM domain; Region: TRAM; cl01282 499229004437 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 499229004438 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 499229004439 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 499229004440 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 499229004441 FeS/SAM binding site; other site 499229004442 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 499229004443 active site 499229004444 putative substrate binding region [chemical binding]; other site 499229004445 Peptidase family M23; Region: Peptidase_M23; pfam01551 499229004446 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 499229004447 cell division protein FtsA; Region: ftsA; TIGR01174 499229004448 Cell division protein FtsA; Region: FtsA; cl11496 499229004449 Cell division protein FtsA; Region: FtsA; cl11496 499229004450 Septum formation topological specificity factor MinE; Region: MinE; cl00538 499229004451 septum site-determining protein MinD; Region: minD_bact; TIGR01968 499229004452 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 499229004453 Switch I; other site 499229004454 Switch II; other site 499229004455 septum formation inhibitor; Reviewed; Region: minC; PRK00513 499229004456 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 499229004457 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 499229004458 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 499229004459 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 499229004460 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 499229004461 rod shape-determining protein MreD; Region: MreD; cl01087 499229004462 rod shape-determining protein MreC; Region: MreC; pfam04085 499229004463 rod shape-determining protein MreB; Provisional; Region: PRK13927 499229004464 Cell division protein FtsA; Region: FtsA; cl11496 499229004465 hypothetical protein; Reviewed; Region: PRK00024 499229004466 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 499229004467 MPN+ (JAMM) motif; other site 499229004468 Zinc-binding site [ion binding]; other site 499229004469 Maf-like protein; Region: Maf; pfam02545 499229004470 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 499229004471 active site 499229004472 dimer interface [polypeptide binding]; other site 499229004473 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 499229004474 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 499229004475 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 499229004476 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229004477 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229004478 DNA binding residues [nucleotide binding] 499229004479 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 499229004480 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 499229004481 SAF domain; Region: SAF; cl00555 499229004482 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229004483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229004484 NAD(P) binding site [chemical binding]; other site 499229004485 GntP family permease; Region: GntP_permease; pfam02447 499229004486 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 499229004487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229004488 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 499229004489 NAD(P) binding site [chemical binding]; other site 499229004490 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 499229004491 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 499229004492 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 499229004493 Propionate catabolism activator; Region: PrpR_N; pfam06506 499229004494 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 499229004495 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 499229004496 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229004497 Walker A motif; other site 499229004498 ATP binding site [chemical binding]; other site 499229004499 Walker B motif; other site 499229004500 Helix-turn-helix domains; Region: HTH; cl00088 499229004501 Asp23 family; Region: Asp23; cl00574 499229004502 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 499229004503 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 499229004504 tetramer interface [polypeptide binding]; other site 499229004505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229004506 catalytic residue [active] 499229004507 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 499229004508 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229004509 dimer interface [polypeptide binding]; other site 499229004510 putative CheW interface [polypeptide binding]; other site 499229004511 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 499229004512 Nucleoside recognition; Region: Gate; cl00486 499229004513 Nucleoside recognition; Region: Gate; cl00486 499229004514 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 499229004515 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 499229004516 GIY-YIG motif/motif A; other site 499229004517 active site 499229004518 catalytic site [active] 499229004519 putative DNA binding site [nucleotide binding]; other site 499229004520 metal binding site [ion binding]; metal-binding site 499229004521 UvrB/uvrC motif; Region: UVR; pfam02151 499229004522 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 499229004523 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 499229004524 dimerization interface [polypeptide binding]; other site 499229004525 putative DNA binding site [nucleotide binding]; other site 499229004526 putative Zn2+ binding site [ion binding]; other site 499229004527 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 499229004528 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 499229004529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229004530 Hexokinase; Region: Hexokinase_1; pfam00349 499229004531 Hexokinase; Region: Hexokinase_2; pfam03727 499229004532 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 499229004533 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 499229004534 dimerization interface [polypeptide binding]; other site 499229004535 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229004536 dimer interface [polypeptide binding]; other site 499229004537 phosphorylation site [posttranslational modification] 499229004538 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 499229004539 ATP binding site [chemical binding]; other site 499229004540 Mg2+ binding site [ion binding]; other site 499229004541 G-X-G motif; other site 499229004542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 499229004543 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 499229004544 active site 499229004545 phosphorylation site [posttranslational modification] 499229004546 intermolecular recognition site; other site 499229004547 dimerization interface [polypeptide binding]; other site 499229004548 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229004549 DNA binding site [nucleotide binding] 499229004550 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 499229004551 NodB motif; other site 499229004552 active site 499229004553 catalytic site [active] 499229004554 metal binding site [ion binding]; metal-binding site 499229004555 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 499229004556 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 499229004557 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 499229004558 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 499229004559 PhoU domain; Region: PhoU; pfam01895 499229004560 PhoU domain; Region: PhoU; pfam01895 499229004561 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 499229004562 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 499229004563 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 499229004564 PhoU domain; Region: PhoU; pfam01895 499229004565 PhoU domain; Region: PhoU; pfam01895 499229004566 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 499229004567 HutP; Region: HutP; cl07944 499229004568 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 499229004569 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 499229004570 zinc binding site [ion binding]; other site 499229004571 putative ligand binding site [chemical binding]; other site 499229004572 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 499229004573 TM-ABC transporter signature motif; other site 499229004574 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 499229004575 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004576 Walker A/P-loop; other site 499229004577 ATP binding site [chemical binding]; other site 499229004578 Q-loop/lid; other site 499229004579 ABC transporter signature motif; other site 499229004580 Walker B; other site 499229004581 D-loop; other site 499229004582 H-loop/switch region; other site 499229004583 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 499229004584 Radical SAM superfamily; Region: Radical_SAM; pfam04055 499229004585 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 499229004586 FeS/SAM binding site; other site 499229004587 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 499229004588 SAF domain; Region: SAF; cl00555 499229004589 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 499229004590 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 499229004591 altronate oxidoreductase; Provisional; Region: PRK03643 499229004592 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 499229004593 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 499229004594 KduI/IolB family; Region: KduI; cl01508 499229004595 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 499229004596 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 499229004597 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 499229004598 active site 499229004599 DctM-like transporters; Region: DctM; pfam06808 499229004600 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229004601 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 499229004602 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 499229004603 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 499229004604 Helix-turn-helix domains; Region: HTH; cl00088 499229004605 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 499229004606 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229004607 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 499229004608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229004609 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 499229004610 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 499229004611 FAD dependent oxidoreductase; Region: DAO; pfam01266 499229004612 sarcosine oxidase, monomeric form; Region: soxA_mon; TIGR01377 499229004613 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 499229004614 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 499229004615 4Fe-4S binding domain; Region: Fer4; cl02805 499229004616 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 499229004617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229004618 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 499229004619 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 499229004620 THUMP domain; Region: THUMP; cl12076 499229004621 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 499229004622 Ligand Binding Site [chemical binding]; other site 499229004623 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 499229004624 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 499229004625 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229004626 catalytic residue [active] 499229004627 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 499229004628 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 499229004629 4Fe-4S binding domain; Region: Fer4; cl02805 499229004630 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 499229004631 Isochorismatase family; Region: Isochorismatase; pfam00857 499229004632 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 499229004633 catalytic triad [active] 499229004634 conserved cis-peptide bond; other site 499229004635 AzlC protein; Region: AzlC; cl00570 499229004636 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 499229004637 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 499229004638 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 499229004639 nicotinate phosphoribosyltransferase; Reviewed; Region: PRK08662 499229004640 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 499229004641 active site 499229004642 Protein of unknown function (DUF441); Region: DUF441; cl01041 499229004643 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 499229004644 N-acetyl-D-glucosamine binding site [chemical binding]; other site 499229004645 catalytic residue [active] 499229004646 dephospho-CoA kinase; Region: TIGR00152 499229004647 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 499229004648 CoA-binding site [chemical binding]; other site 499229004649 ATP-binding [chemical binding]; other site 499229004650 DNA polymerase I; Provisional; Region: PRK05755 499229004651 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 499229004652 active site 499229004653 metal binding site 1 [ion binding]; metal-binding site 499229004654 putative 5' ssDNA interaction site; other site 499229004655 metal binding site 3; metal-binding site 499229004656 metal binding site 2 [ion binding]; metal-binding site 499229004657 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 499229004658 putative DNA binding site [nucleotide binding]; other site 499229004659 putative metal binding site [ion binding]; other site 499229004660 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 499229004661 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 499229004662 active site 499229004663 DNA binding site [nucleotide binding] 499229004664 catalytic site [active] 499229004665 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 499229004666 Putative zinc-finger; Region: zf-HC2; cl15806 499229004667 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 499229004668 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 499229004669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229004670 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 499229004671 DNA binding residues [nucleotide binding] 499229004672 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 499229004673 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 499229004674 Walker A/P-loop; other site 499229004675 ATP binding site [chemical binding]; other site 499229004676 Q-loop/lid; other site 499229004677 ABC transporter signature motif; other site 499229004678 Walker B; other site 499229004679 D-loop; other site 499229004680 H-loop/switch region; other site 499229004681 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 499229004682 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 499229004683 Walker A/P-loop; other site 499229004684 ATP binding site [chemical binding]; other site 499229004685 Q-loop/lid; other site 499229004686 ABC transporter signature motif; other site 499229004687 Walker B; other site 499229004688 D-loop; other site 499229004689 H-loop/switch region; other site 499229004690 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 499229004691 TM-ABC transporter signature motif; other site 499229004692 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 499229004693 TM-ABC transporter signature motif; other site 499229004694 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 499229004695 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 499229004696 putative ligand binding site [chemical binding]; other site 499229004697 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 499229004698 ZIP Zinc transporter; Region: Zip; pfam02535 499229004699 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 499229004700 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 499229004701 substrate binding site [chemical binding]; other site 499229004702 active site 499229004703 catalytic residues [active] 499229004704 heterodimer interface [polypeptide binding]; other site 499229004705 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 499229004706 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 499229004707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229004708 catalytic residue [active] 499229004709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 499229004710 Transposase; Region: DEDD_Tnp_IS110; pfam01548 499229004711 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 499229004712 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 499229004713 active site 499229004714 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 499229004715 active site 499229004716 ribulose/triose binding site [chemical binding]; other site 499229004717 phosphate binding site [ion binding]; other site 499229004718 substrate (anthranilate) binding pocket [chemical binding]; other site 499229004719 product (indole) binding pocket [chemical binding]; other site 499229004720 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 499229004721 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 499229004722 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 499229004723 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 499229004724 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 499229004725 glutamine binding [chemical binding]; other site 499229004726 catalytic triad [active] 499229004727 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 499229004728 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 499229004729 chorismate binding enzyme; Region: Chorismate_bind; cl10555 499229004730 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 499229004731 Chromate transporter; Region: Chromate_transp; pfam02417 499229004732 Chromate transporter; Region: Chromate_transp; pfam02417 499229004733 Helix-turn-helix domains; Region: HTH; cl00088 499229004734 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 499229004735 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229004736 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 499229004737 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 499229004738 FeS/SAM binding site; other site 499229004739 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 499229004740 Sulfatase; Region: Sulfatase; cl10460 499229004741 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 499229004742 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 499229004743 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229004744 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 499229004745 active site 499229004746 P-loop; other site 499229004747 phosphorylation site [posttranslational modification] 499229004748 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 499229004749 methionine cluster; other site 499229004750 active site 499229004751 phosphorylation site [posttranslational modification] 499229004752 metal binding site [ion binding]; metal-binding site 499229004753 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229004754 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 499229004755 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229004756 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 499229004757 methionine cluster; other site 499229004758 active site 499229004759 phosphorylation site [posttranslational modification] 499229004760 metal binding site [ion binding]; metal-binding site 499229004761 Helix-turn-helix domains; Region: HTH; cl00088 499229004762 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 499229004763 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229004764 Walker A motif; other site 499229004765 ATP binding site [chemical binding]; other site 499229004766 Walker B motif; other site 499229004767 arginine finger; other site 499229004768 PRD domain; Region: PRD; cl15445 499229004769 Transcriptional antiterminator [Transcription]; Region: COG3933 499229004770 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229004771 active pocket/dimerization site; other site 499229004772 active site 499229004773 phosphorylation site [posttranslational modification] 499229004774 PRD domain; Region: PRD; cl15445 499229004775 Cache domain; Region: Cache_1; pfam02743 499229004776 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 499229004777 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229004778 dimer interface [polypeptide binding]; other site 499229004779 putative CheW interface [polypeptide binding]; other site 499229004780 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 499229004781 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 499229004782 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 499229004783 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 499229004784 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 499229004785 motif II; other site 499229004786 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 499229004787 Cation efflux family; Region: Cation_efflux; cl00316 499229004788 Transposase domain (DUF772); Region: DUF772; cl15789 499229004789 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 499229004790 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 499229004791 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 499229004792 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 499229004793 excinuclease ABC subunit B; Provisional; Region: PRK05298 499229004794 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 499229004795 ATP binding site [chemical binding]; other site 499229004796 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 499229004797 nucleotide binding region [chemical binding]; other site 499229004798 ATP-binding site [chemical binding]; other site 499229004799 Ultra-violet resistance protein B; Region: UvrB; pfam12344 499229004800 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 499229004801 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 499229004802 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 499229004803 C-terminal peptidase (prc); Region: prc; TIGR00225 499229004804 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 499229004805 protein binding site [polypeptide binding]; other site 499229004806 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 499229004807 Catalytic dyad [active] 499229004808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 499229004809 Peptidase family M23; Region: Peptidase_M23; pfam01551 499229004810 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 499229004811 FtsX-like permease family; Region: FtsX; cl15850 499229004812 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 499229004813 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004814 Walker A/P-loop; other site 499229004815 ATP binding site [chemical binding]; other site 499229004816 Q-loop/lid; other site 499229004817 ABC transporter signature motif; other site 499229004818 Walker B; other site 499229004819 D-loop; other site 499229004820 H-loop/switch region; other site 499229004821 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 499229004822 Domain of unknown function (DUF377); Region: DUF377; pfam04041 499229004823 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 499229004824 active site 499229004825 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 499229004826 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 499229004827 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 499229004828 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 499229004829 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229004830 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 499229004831 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229004832 active site 499229004833 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 499229004834 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 499229004835 PYR/PP interface [polypeptide binding]; other site 499229004836 dimer interface [polypeptide binding]; other site 499229004837 TPP binding site [chemical binding]; other site 499229004838 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 499229004839 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 499229004840 TPP-binding site [chemical binding]; other site 499229004841 dimer interface [polypeptide binding]; other site 499229004842 Uncharacterized conserved protein [Function unknown]; Region: COG1284 499229004843 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 499229004844 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 499229004845 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 499229004846 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 499229004847 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 499229004848 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 499229004849 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 499229004850 O-Antigen ligase; Region: Wzy_C; cl04850 499229004851 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 499229004852 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 499229004853 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 499229004854 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 499229004855 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 499229004856 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 499229004857 active site 499229004858 ATP binding site [chemical binding]; other site 499229004859 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 499229004860 homodimer interface [polypeptide binding]; other site 499229004861 Walker A motif; other site 499229004862 ATP binding site [chemical binding]; other site 499229004863 hydroxycobalamin binding site [chemical binding]; other site 499229004864 Walker B motif; other site 499229004865 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 499229004866 active site 499229004867 trimer interface [polypeptide binding]; other site 499229004868 allosteric site; other site 499229004869 active site lid [active] 499229004870 hexamer (dimer of trimers) interface [polypeptide binding]; other site 499229004871 hypothetical protein; Provisional; Region: PRK08185 499229004872 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 499229004873 intersubunit interface [polypeptide binding]; other site 499229004874 active site 499229004875 zinc binding site [ion binding]; other site 499229004876 Na+ binding site [ion binding]; other site 499229004877 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 499229004878 Zn binding site [ion binding]; other site 499229004879 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 499229004880 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 499229004881 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 499229004882 active site 499229004883 HIGH motif; other site 499229004884 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 499229004885 active site 499229004886 KMSKS motif; other site 499229004887 Protein of unknown function DUF111; Region: DUF111; cl03398 499229004888 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 499229004889 AIR carboxylase; Region: AIRC; cl00310 499229004890 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 499229004891 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 499229004892 Ligand Binding Site [chemical binding]; other site 499229004893 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 499229004894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229004895 Family description; Region: UvrD_C_2; cl15862 499229004896 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229004897 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 499229004898 active site 499229004899 GAF domain; Region: GAF_2; pfam13185 499229004900 GAF domain; Region: GAF; cl15785 499229004901 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 499229004902 metal binding site [ion binding]; metal-binding site 499229004903 active site 499229004904 I-site; other site 499229004905 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 499229004906 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 499229004907 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 499229004908 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229004909 homodimer interface [polypeptide binding]; other site 499229004910 catalytic residue [active] 499229004911 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 499229004912 active site 499229004913 phosphorylation site [posttranslational modification] 499229004914 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 499229004915 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 499229004916 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 499229004917 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 499229004918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229004919 catalytic residue [active] 499229004920 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229004921 active pocket/dimerization site; other site 499229004922 active site 499229004923 phosphorylation site [posttranslational modification] 499229004924 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 499229004925 active site 499229004926 phosphorylation site [posttranslational modification] 499229004927 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229004928 active pocket/dimerization site; other site 499229004929 active site 499229004930 phosphorylation site [posttranslational modification] 499229004931 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 499229004932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229004933 Walker A motif; other site 499229004934 ATP binding site [chemical binding]; other site 499229004935 Walker B motif; other site 499229004936 arginine finger; other site 499229004937 Transcriptional antiterminator [Transcription]; Region: COG3933 499229004938 PRD domain; Region: PRD; cl15445 499229004939 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229004940 active pocket/dimerization site; other site 499229004941 active site 499229004942 phosphorylation site [posttranslational modification] 499229004943 PRD domain; Region: PRD; cl15445 499229004944 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 499229004945 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 499229004946 active site 499229004947 phosphorylation site [posttranslational modification] 499229004948 intermolecular recognition site; other site 499229004949 dimerization interface [polypeptide binding]; other site 499229004950 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 499229004951 DNA binding residues [nucleotide binding] 499229004952 dimerization interface [polypeptide binding]; other site 499229004953 Sensor protein DegS; Region: DegS; pfam05384 499229004954 WAHD domain of WASH complex; Region: WASH_WAHD; pfam11945 499229004955 Histidine kinase; Region: HisKA_3; pfam07730 499229004956 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 499229004957 S-adenosylmethionine synthetase; Validated; Region: PRK05250 499229004958 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 499229004959 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 499229004960 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 499229004961 HEAT repeats; Region: HEAT_2; pfam13646 499229004962 Arginase family; Region: Arginase; cl00306 499229004963 Fructose-1,6-bisphosphatase; Region: FBPase_3; cl00862 499229004964 Haemagglutinin; Region: Hemagglutinin; pfam00509 499229004965 Haemagglutinin; Region: Hemagglutinin; pfam00509 499229004966 GMP synthase; Reviewed; Region: guaA; PRK00074 499229004967 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 499229004968 AMP/PPi binding site [chemical binding]; other site 499229004969 candidate oxyanion hole; other site 499229004970 catalytic triad [active] 499229004971 potential glutamine specificity residues [chemical binding]; other site 499229004972 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 499229004973 ATP Binding subdomain [chemical binding]; other site 499229004974 Ligand Binding sites [chemical binding]; other site 499229004975 Dimerization subdomain; other site 499229004976 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 499229004977 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 499229004978 FtsX-like permease family; Region: FtsX; cl15850 499229004979 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 499229004980 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 499229004981 Walker A/P-loop; other site 499229004982 ATP binding site [chemical binding]; other site 499229004983 Q-loop/lid; other site 499229004984 ABC transporter signature motif; other site 499229004985 Walker B; other site 499229004986 D-loop; other site 499229004987 H-loop/switch region; other site 499229004988 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 499229004989 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229004990 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229004991 ABC-2 type transporter; Region: ABC2_membrane; cl11417 499229004992 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 499229004993 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 499229004994 Walker A/P-loop; other site 499229004995 ATP binding site [chemical binding]; other site 499229004996 Q-loop/lid; other site 499229004997 ABC transporter signature motif; other site 499229004998 Walker B; other site 499229004999 D-loop; other site 499229005000 H-loop/switch region; other site 499229005001 Predicted transcriptional regulators [Transcription]; Region: COG1725 499229005002 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229005003 DNA-binding site [nucleotide binding]; DNA binding site 499229005004 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 499229005005 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 499229005006 putative active site [active] 499229005007 putative acetyltransferase; Provisional; Region: PRK03624 499229005008 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 499229005009 Coenzyme A binding pocket [chemical binding]; other site 499229005010 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 499229005011 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229005012 active pocket/dimerization site; other site 499229005013 active site 499229005014 phosphorylation site [posttranslational modification] 499229005015 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 499229005016 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 499229005017 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 499229005018 active site 499229005019 phosphorylation site [posttranslational modification] 499229005020 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 499229005021 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 499229005022 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 499229005023 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 499229005024 putative active site [active] 499229005025 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 499229005026 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 499229005027 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 499229005028 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 499229005029 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 499229005030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005031 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 499229005032 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 499229005033 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229005034 Walker A motif; other site 499229005035 ATP binding site [chemical binding]; other site 499229005036 Walker B motif; other site 499229005037 arginine finger; other site 499229005038 Helix-turn-helix domains; Region: HTH; cl00088 499229005039 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 family...; Region: PTS_IIA_glc; cl00162 499229005040 HPr interaction site; other site 499229005041 glycerol kinase (GK) interaction site [polypeptide binding]; other site 499229005042 active site 499229005043 phosphorylation site [posttranslational modification] 499229005044 transcriptional antiterminator BglG; Provisional; Region: PRK09772 499229005045 CAT RNA binding domain; Region: CAT_RBD; cl03904 499229005046 PRD domain; Region: PRD; cl15445 499229005047 PRD domain; Region: PRD; cl15445 499229005048 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 499229005049 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229005050 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 499229005051 active site turn [active] 499229005052 phosphorylation site [posttranslational modification] 499229005053 Transcriptional regulators [Transcription]; Region: GntR; COG1802 499229005054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229005055 DNA-binding site [nucleotide binding]; DNA binding site 499229005056 FCD domain; Region: FCD; cl11656 499229005057 KduI/IolB family; Region: KduI; cl01508 499229005058 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 499229005059 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 499229005060 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 499229005061 active site 499229005062 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 499229005063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005064 NAD(P) binding site [chemical binding]; other site 499229005065 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 499229005066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005067 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 499229005068 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 499229005069 Walker A/P-loop; other site 499229005070 ATP binding site [chemical binding]; other site 499229005071 Q-loop/lid; other site 499229005072 ABC transporter signature motif; other site 499229005073 Walker B; other site 499229005074 D-loop; other site 499229005075 H-loop/switch region; other site 499229005076 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 499229005077 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 499229005078 Walker A/P-loop; other site 499229005079 ATP binding site [chemical binding]; other site 499229005080 Q-loop/lid; other site 499229005081 ABC transporter signature motif; other site 499229005082 Walker B; other site 499229005083 D-loop; other site 499229005084 H-loop/switch region; other site 499229005085 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 499229005086 TM-ABC transporter signature motif; other site 499229005087 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 499229005088 TM-ABC transporter signature motif; other site 499229005089 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 499229005090 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 499229005091 ligand binding site [chemical binding]; other site 499229005092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005093 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 499229005094 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 499229005095 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 499229005096 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 499229005097 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 499229005098 N- and C-terminal domain interface [polypeptide binding]; other site 499229005099 putative active site [active] 499229005100 catalytic site [active] 499229005101 metal binding site [ion binding]; metal-binding site 499229005102 carbohydrate binding site [chemical binding]; other site 499229005103 ATP binding site [chemical binding]; other site 499229005104 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 499229005105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005106 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 499229005107 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 499229005108 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 499229005109 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 499229005110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005111 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 499229005112 NAD(P) binding site [chemical binding]; other site 499229005113 homodimer interface [polypeptide binding]; other site 499229005114 substrate binding site [chemical binding]; other site 499229005115 active site 499229005116 integral membrane protein MviN; Region: mviN; TIGR01695 499229005117 MatE; Region: MatE; cl10513 499229005118 Uncharacterized conserved protein [Function unknown]; Region: COG3465 499229005119 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 499229005120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 499229005121 4Fe-4S binding domain; Region: Fer4; cl02805 499229005122 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 499229005123 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 499229005124 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 499229005125 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 499229005126 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 499229005127 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 499229005128 putative ADP-binding pocket [chemical binding]; other site 499229005129 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u1; cd10925 499229005130 NodB motif; other site 499229005131 putative active site [active] 499229005132 putative catalytic site [active] 499229005133 putative Zn binding site [ion binding]; other site 499229005134 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 499229005135 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 499229005136 putative NAD(P) binding site [chemical binding]; other site 499229005137 active site 499229005138 putative substrate binding site [chemical binding]; other site 499229005139 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 499229005140 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 499229005141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005142 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 499229005143 putative ADP-binding pocket [chemical binding]; other site 499229005144 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 499229005145 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 499229005146 inhibitor-cofactor binding pocket; inhibition site 499229005147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229005148 catalytic residue [active] 499229005149 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 499229005150 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 499229005151 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 499229005152 putative trimer interface [polypeptide binding]; other site 499229005153 putative CoA binding site [chemical binding]; other site 499229005154 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 499229005155 classical (c) SDRs; Region: SDR_c; cd05233 499229005156 NAD(P) binding site [chemical binding]; other site 499229005157 active site 499229005158 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 499229005159 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 499229005160 dimer interface [polypeptide binding]; other site 499229005161 active site 499229005162 CoA binding pocket [chemical binding]; other site 499229005163 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 499229005164 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 499229005165 dimer interface [polypeptide binding]; other site 499229005166 active site 499229005167 CoA binding pocket [chemical binding]; other site 499229005168 Bacterial sugar transferase; Region: Bac_transf; cl00939 499229005169 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 499229005170 O-Antigen ligase; Region: Wzy_C; cl04850 499229005171 O-Antigen ligase; Region: Wzy_C; cl04850 499229005172 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229005173 binding surface 499229005174 TPR motif; other site 499229005175 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 499229005176 Chain length determinant protein; Region: Wzz; cl15801 499229005177 Chain length determinant protein; Region: Wzz; cl15801 499229005178 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 499229005179 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 499229005180 YvrJ protein family; Region: YvrJ; pfam12841 499229005181 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 499229005182 amidase catalytic site [active] 499229005183 Zn binding residues [ion binding]; other site 499229005184 substrate binding site [chemical binding]; other site 499229005185 ComK protein; Region: ComK; cl11560 499229005186 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 499229005187 Clp amino terminal domain; Region: Clp_N; pfam02861 499229005188 Clp amino terminal domain; Region: Clp_N; pfam02861 499229005189 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229005190 Walker A motif; other site 499229005191 ATP binding site [chemical binding]; other site 499229005192 Walker B motif; other site 499229005193 arginine finger; other site 499229005194 Integral membrane protein DUF106; Region: DUF106; cl00623 499229005195 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229005196 Walker A motif; other site 499229005197 ATP binding site [chemical binding]; other site 499229005198 Walker B motif; other site 499229005199 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 499229005200 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 499229005201 active site 499229005202 dimer interfaces [polypeptide binding]; other site 499229005203 catalytic residues [active] 499229005204 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 499229005205 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 499229005206 active site 499229005207 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 499229005208 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 499229005209 FtsX-like permease family; Region: FtsX; cl15850 499229005210 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 499229005211 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 499229005212 Walker A/P-loop; other site 499229005213 ATP binding site [chemical binding]; other site 499229005214 Q-loop/lid; other site 499229005215 ABC transporter signature motif; other site 499229005216 Walker B; other site 499229005217 D-loop; other site 499229005218 H-loop/switch region; other site 499229005219 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229005220 HlyD family secretion protein; Region: HlyD_2; pfam12700 499229005221 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229005222 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 499229005223 Uncharacterized conserved protein [Function unknown]; Region: COG0585 499229005224 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 499229005225 active site 499229005226 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 499229005227 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 499229005228 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229005229 Walker A motif; other site 499229005230 ATP binding site [chemical binding]; other site 499229005231 Walker B motif; other site 499229005232 Predicted amidohydrolase [General function prediction only]; Region: COG0388 499229005233 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 499229005234 dimer interface [polypeptide binding]; other site 499229005235 active site 499229005236 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 499229005237 putative active site [active] 499229005238 putative metal binding site [ion binding]; other site 499229005239 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229005240 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 499229005241 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 499229005242 RNA binding surface [nucleotide binding]; other site 499229005243 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 499229005244 active site 499229005245 uracil binding [chemical binding]; other site 499229005246 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 499229005247 active site 499229005248 substrate binding site [chemical binding]; other site 499229005249 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 499229005250 FMN binding site [chemical binding]; other site 499229005251 putative catalytic residues [active] 499229005252 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 499229005253 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 499229005254 active site 499229005255 FMN binding site [chemical binding]; other site 499229005256 substrate binding site [chemical binding]; other site 499229005257 putative catalytic residue [active] 499229005258 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229005259 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229005260 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 499229005261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005262 NAD(P) binding site [chemical binding]; other site 499229005263 active site 499229005264 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 499229005265 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 499229005266 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 499229005267 substrate binding site [chemical binding]; other site 499229005268 dimer interface [polypeptide binding]; other site 499229005269 ATP binding site [chemical binding]; other site 499229005270 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 499229005271 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 499229005272 putative active site [active] 499229005273 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 499229005274 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 499229005275 inhibitor site; inhibition site 499229005276 active site 499229005277 dimer interface [polypeptide binding]; other site 499229005278 catalytic residue [active] 499229005279 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 499229005280 Malic enzyme, N-terminal domain; Region: malic; pfam00390 499229005281 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 499229005282 putative NAD(P) binding site [chemical binding]; other site 499229005283 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 499229005284 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 499229005285 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 499229005286 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 499229005287 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 499229005288 inhibitor site; inhibition site 499229005289 active site 499229005290 dimer interface [polypeptide binding]; other site 499229005291 catalytic residue [active] 499229005292 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 499229005293 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 499229005294 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 499229005295 Walker A/P-loop; other site 499229005296 ATP binding site [chemical binding]; other site 499229005297 Q-loop/lid; other site 499229005298 ABC transporter signature motif; other site 499229005299 Walker B; other site 499229005300 D-loop; other site 499229005301 H-loop/switch region; other site 499229005302 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 499229005303 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 499229005304 Walker A/P-loop; other site 499229005305 ATP binding site [chemical binding]; other site 499229005306 Q-loop/lid; other site 499229005307 ABC transporter signature motif; other site 499229005308 Walker B; other site 499229005309 D-loop; other site 499229005310 H-loop/switch region; other site 499229005311 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 499229005312 TM-ABC transporter signature motif; other site 499229005313 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 499229005314 TM-ABC transporter signature motif; other site 499229005315 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 499229005316 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 499229005317 Transcriptional regulators [Transcription]; Region: PurR; COG1609 499229005318 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 499229005319 DNA binding site [nucleotide binding] 499229005320 domain linker motif; other site 499229005321 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 499229005322 dimerization interface [polypeptide binding]; other site 499229005323 ligand binding site [chemical binding]; other site 499229005324 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 499229005325 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 499229005326 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 499229005327 active site 499229005328 phosphorylation site [posttranslational modification] 499229005329 intermolecular recognition site; other site 499229005330 dimerization interface [polypeptide binding]; other site 499229005331 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229005332 DNA binding site [nucleotide binding] 499229005333 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229005334 dimer interface [polypeptide binding]; other site 499229005335 phosphorylation site [posttranslational modification] 499229005336 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 499229005337 ATP binding site [chemical binding]; other site 499229005338 Mg2+ binding site [ion binding]; other site 499229005339 G-X-G motif; other site 499229005340 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 499229005341 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 499229005342 Walker A/P-loop; other site 499229005343 ATP binding site [chemical binding]; other site 499229005344 Q-loop/lid; other site 499229005345 ABC transporter signature motif; other site 499229005346 Walker B; other site 499229005347 D-loop; other site 499229005348 H-loop/switch region; other site 499229005349 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 499229005350 FtsX-like permease family; Region: FtsX; cl15850 499229005351 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 499229005352 FtsX-like permease family; Region: FtsX; cl15850 499229005353 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 499229005354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005355 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 499229005356 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229005357 catalytic Zn binding site [ion binding]; other site 499229005358 structural Zn binding site [ion binding]; other site 499229005359 tetramer interface [polypeptide binding]; other site 499229005360 Cupin domain; Region: Cupin_2; cl09118 499229005361 KduI/IolB family; Region: KduI; cl01508 499229005362 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 499229005363 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 499229005364 substrate binding site [chemical binding]; other site 499229005365 oxyanion hole (OAH) forming residues; other site 499229005366 trimer interface [polypeptide binding]; other site 499229005367 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 499229005368 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 499229005369 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 499229005370 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 499229005371 dimer interaction site [polypeptide binding]; other site 499229005372 substrate-binding tunnel; other site 499229005373 active site 499229005374 catalytic site [active] 499229005375 substrate binding site [chemical binding]; other site 499229005376 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 499229005377 fructoselysine 3-epimerase; Provisional; Region: PRK09856 499229005378 DNA interaction; other site 499229005379 Metal-binding active site; metal-binding site 499229005380 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229005381 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 499229005382 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 499229005383 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 499229005384 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 499229005385 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 499229005386 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 499229005387 shikimate binding site; other site 499229005388 NAD(P) binding site [chemical binding]; other site 499229005389 Transcriptional regulators [Transcription]; Region: PurR; COG1609 499229005390 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 499229005391 DNA binding site [nucleotide binding] 499229005392 domain linker motif; other site 499229005393 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 499229005394 dimerization interface [polypeptide binding]; other site 499229005395 ligand binding site [chemical binding]; other site 499229005396 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 499229005397 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 499229005398 substrate binding site [chemical binding]; other site 499229005399 ATP binding site [chemical binding]; other site 499229005400 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 499229005401 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 499229005402 active site 499229005403 intersubunit interface [polypeptide binding]; other site 499229005404 catalytic residue [active] 499229005405 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 499229005406 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 499229005407 TM-ABC transporter signature motif; other site 499229005408 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 499229005409 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 499229005410 Walker A/P-loop; other site 499229005411 ATP binding site [chemical binding]; other site 499229005412 Q-loop/lid; other site 499229005413 ABC transporter signature motif; other site 499229005414 Walker B; other site 499229005415 D-loop; other site 499229005416 H-loop/switch region; other site 499229005417 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 499229005418 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 499229005419 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 499229005420 ligand binding site [chemical binding]; other site 499229005421 calcium binding site [ion binding]; other site 499229005422 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 499229005423 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 499229005424 putative ligand binding site [chemical binding]; other site 499229005425 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 499229005426 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 499229005427 active site 499229005428 phosphorylation site [posttranslational modification] 499229005429 intermolecular recognition site; other site 499229005430 dimerization interface [polypeptide binding]; other site 499229005431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 499229005432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 499229005433 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 499229005434 dimerization interface [polypeptide binding]; other site 499229005435 Histidine kinase; Region: His_kinase; pfam06580 499229005436 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 499229005437 ATP binding site [chemical binding]; other site 499229005438 Mg2+ binding site [ion binding]; other site 499229005439 G-X-G motif; other site 499229005440 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 499229005441 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 499229005442 ligand binding site [chemical binding]; other site 499229005443 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 499229005444 Cache domain; Region: Cache_1; pfam02743 499229005445 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 499229005446 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229005447 dimer interface [polypeptide binding]; other site 499229005448 putative CheW interface [polypeptide binding]; other site 499229005449 Flavin Reductases; Region: FlaRed; cl00801 499229005450 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 499229005451 homopentamer interface [polypeptide binding]; other site 499229005452 active site 499229005453 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 499229005454 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 499229005455 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 499229005456 dimerization interface [polypeptide binding]; other site 499229005457 active site 499229005458 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 499229005459 Lumazine binding domain; Region: Lum_binding; pfam00677 499229005460 Lumazine binding domain; Region: Lum_binding; pfam00677 499229005461 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 499229005462 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 499229005463 catalytic motif [active] 499229005464 Zn binding site [ion binding]; other site 499229005465 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 499229005466 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 499229005467 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 499229005468 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 499229005469 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 499229005470 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 499229005471 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 499229005472 non-specific DNA binding site [nucleotide binding]; other site 499229005473 salt bridge; other site 499229005474 sequence-specific DNA binding site [nucleotide binding]; other site 499229005475 Sodium:solute symporter family; Region: SSF; cl00456 499229005476 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 499229005477 Protein of unknown function (DUF997); Region: DUF997; cl01614 499229005478 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 499229005479 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 499229005480 active site 499229005481 putative substrate binding pocket [chemical binding]; other site 499229005482 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229005483 peptidase; Reviewed; Region: PRK13004 499229005484 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 499229005485 putative metal binding site [ion binding]; other site 499229005486 putative dimer interface [polypeptide binding]; other site 499229005487 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 499229005488 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 499229005489 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229005490 catalytic residue [active] 499229005491 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 499229005492 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229005493 Walker A motif; other site 499229005494 ATP binding site [chemical binding]; other site 499229005495 Walker B motif; other site 499229005496 arginine finger; other site 499229005497 Helix-turn-helix domains; Region: HTH; cl00088 499229005498 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 499229005499 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229005500 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 499229005501 active site 499229005502 P-loop; other site 499229005503 phosphorylation site [posttranslational modification] 499229005504 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 499229005505 methionine cluster; other site 499229005506 active site 499229005507 phosphorylation site [posttranslational modification] 499229005508 metal binding site [ion binding]; metal-binding site 499229005509 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 499229005510 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229005511 ATP binding site [chemical binding]; other site 499229005512 Walker B motif; other site 499229005513 arginine finger; other site 499229005514 Transcriptional antiterminator [Transcription]; Region: COG3933 499229005515 PRD domain; Region: PRD; cl15445 499229005516 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229005517 active pocket/dimerization site; other site 499229005518 active site 499229005519 phosphorylation site [posttranslational modification] 499229005520 PRD domain; Region: PRD; cl15445 499229005521 HIRAN domain; Region: HIRAN; cl07418 499229005522 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 499229005523 PglZ domain; Region: PglZ; pfam08665 499229005524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005525 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 499229005526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005527 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 499229005528 tyrosine phenol-lyase; Provisional; Region: PRK13237 499229005529 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 499229005530 substrate binding site [chemical binding]; other site 499229005531 tetramer interface [polypeptide binding]; other site 499229005532 catalytic residue [active] 499229005533 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 499229005534 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229005535 Walker A motif; other site 499229005536 ATP binding site [chemical binding]; other site 499229005537 Walker B motif; other site 499229005538 arginine finger; other site 499229005539 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 499229005540 CotJB protein; Region: CotJB; pfam12652 499229005541 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 499229005542 dimanganese center [ion binding]; other site 499229005543 ferredoxin; Validated; Region: PRK07118 499229005544 Putative Fe-S cluster; Region: FeS; pfam04060 499229005545 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 499229005546 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 499229005547 4Fe-4S binding domain; Region: Fer4; cl02805 499229005548 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 499229005549 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 499229005550 FMN-binding domain; Region: FMN_bind; cl01081 499229005551 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 499229005552 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 499229005553 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 499229005554 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 499229005555 SLBB domain; Region: SLBB; pfam10531 499229005556 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 499229005557 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 499229005558 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 499229005559 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 499229005560 catalytic loop [active] 499229005561 iron binding site [ion binding]; other site 499229005562 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 499229005563 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 499229005564 4Fe-4S binding domain; Region: Fer4; cl02805 499229005565 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 499229005566 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 499229005567 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 499229005568 dimer interface [polypeptide binding]; other site 499229005569 [2Fe-2S] cluster binding site [ion binding]; other site 499229005570 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 499229005571 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 499229005572 SLBB domain; Region: SLBB; pfam10531 499229005573 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 499229005574 4Fe-4S binding domain; Region: Fer4; cl02805 499229005575 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 499229005576 4Fe-4S binding domain; Region: Fer4; cl02805 499229005577 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 499229005578 dimer interface [polypeptide binding]; other site 499229005579 [2Fe-2S] cluster binding site [ion binding]; other site 499229005580 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 499229005581 ATP binding site [chemical binding]; other site 499229005582 Mg2+ binding site [ion binding]; other site 499229005583 G-X-G motif; other site 499229005584 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 499229005585 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 499229005586 putative dimer interface [polypeptide binding]; other site 499229005587 [2Fe-2S] cluster binding site [ion binding]; other site 499229005588 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 499229005589 DRTGG domain; Region: DRTGG; cl12147 499229005590 4Fe-4S binding domain; Region: Fer4; cl02805 499229005591 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 499229005592 4Fe-4S binding domain; Region: Fer4; cl02805 499229005593 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 499229005594 Putative Fe-S cluster; Region: FeS; pfam04060 499229005595 DRTGG domain; Region: DRTGG; cl12147 499229005596 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 499229005597 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 499229005598 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 499229005599 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 499229005600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005601 ApbE family; Region: ApbE; cl00643 499229005602 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 499229005603 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 499229005604 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 499229005605 Walker A/P-loop; other site 499229005606 ATP binding site [chemical binding]; other site 499229005607 Q-loop/lid; other site 499229005608 ABC transporter signature motif; other site 499229005609 Walker B; other site 499229005610 D-loop; other site 499229005611 H-loop/switch region; other site 499229005612 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229005613 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 499229005614 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 499229005615 Walker A/P-loop; other site 499229005616 ATP binding site [chemical binding]; other site 499229005617 Q-loop/lid; other site 499229005618 ABC transporter signature motif; other site 499229005619 Walker B; other site 499229005620 D-loop; other site 499229005621 H-loop/switch region; other site 499229005622 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 499229005623 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 499229005624 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 499229005625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229005626 putative PBP binding loops; other site 499229005627 dimer interface [polypeptide binding]; other site 499229005628 ABC-ATPase subunit interface; other site 499229005629 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 499229005630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229005631 dimer interface [polypeptide binding]; other site 499229005632 conserved gate region; other site 499229005633 putative PBP binding loops; other site 499229005634 ABC-ATPase subunit interface; other site 499229005635 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 499229005636 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 499229005637 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 499229005638 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 499229005639 GatB domain; Region: GatB_Yqey; cl11497 499229005640 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 499229005641 Amidase; Region: Amidase; cl11426 499229005642 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 499229005643 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 499229005644 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 499229005645 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 499229005646 Walker A/P-loop; other site 499229005647 ATP binding site [chemical binding]; other site 499229005648 Q-loop/lid; other site 499229005649 ABC transporter signature motif; other site 499229005650 Walker B; other site 499229005651 D-loop; other site 499229005652 H-loop/switch region; other site 499229005653 Predicted transcriptional regulators [Transcription]; Region: COG1725 499229005654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229005655 DNA-binding site [nucleotide binding]; DNA binding site 499229005656 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 499229005657 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 499229005658 active site 499229005659 NTP binding site [chemical binding]; other site 499229005660 metal binding triad [ion binding]; metal-binding site 499229005661 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 499229005662 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 499229005663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 499229005664 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 499229005665 Helix-turn-helix domains; Region: HTH; cl00088 499229005666 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 499229005667 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 499229005668 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 499229005669 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 499229005670 G1 box; other site 499229005671 putative GEF interaction site [polypeptide binding]; other site 499229005672 GTP/Mg2+ binding site [chemical binding]; other site 499229005673 Switch I region; other site 499229005674 G2 box; other site 499229005675 G3 box; other site 499229005676 Switch II region; other site 499229005677 G4 box; other site 499229005678 G5 box; other site 499229005679 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 499229005680 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 499229005681 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229005682 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 499229005683 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 499229005684 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 499229005685 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 499229005686 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 499229005687 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 499229005688 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 499229005689 substrate binding site [chemical binding]; other site 499229005690 putative active site [active] 499229005691 dimer interface [polypeptide binding]; other site 499229005692 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 499229005693 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 499229005694 Metal-binding active site; metal-binding site 499229005695 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 499229005696 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 499229005697 homodimer interface [polypeptide binding]; other site 499229005698 substrate-cofactor binding pocket; other site 499229005699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229005700 catalytic residue [active] 499229005701 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 499229005702 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 499229005703 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 499229005704 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 499229005705 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 499229005706 active site 499229005707 putative substrate binding pocket [chemical binding]; other site 499229005708 histidyl-tRNA synthetase; Region: hisS; TIGR00442 499229005709 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 499229005710 dimer interface [polypeptide binding]; other site 499229005711 motif 1; other site 499229005712 active site 499229005713 motif 2; other site 499229005714 motif 3; other site 499229005715 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 499229005716 anticodon binding site; other site 499229005717 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 499229005718 Thiamine pyrophosphokinase; Region: TPK; cl08415 499229005719 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 499229005720 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 499229005721 Ligand binding site; other site 499229005722 Putative Catalytic site; other site 499229005723 DXD motif; other site 499229005724 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 499229005725 Mg++ binding site [ion binding]; other site 499229005726 putative catalytic motif [active] 499229005727 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 499229005728 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 499229005729 homodimer interface [polypeptide binding]; other site 499229005730 substrate-cofactor binding pocket; other site 499229005731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229005732 catalytic residue [active] 499229005733 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 499229005734 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 499229005735 PYR/PP interface [polypeptide binding]; other site 499229005736 dimer interface [polypeptide binding]; other site 499229005737 TPP binding site [chemical binding]; other site 499229005738 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 499229005739 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 499229005740 TPP-binding site [chemical binding]; other site 499229005741 dimer interface [polypeptide binding]; other site 499229005742 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 499229005743 tartrate dehydrogenase; Provisional; Region: PRK08194 499229005744 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 499229005745 substrate binding site [chemical binding]; other site 499229005746 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 499229005747 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 499229005748 substrate binding site [chemical binding]; other site 499229005749 ligand binding site [chemical binding]; other site 499229005750 2-isopropylmalate synthase; Validated; Region: PRK00915 499229005751 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 499229005752 active site 499229005753 catalytic residues [active] 499229005754 metal binding site [ion binding]; metal-binding site 499229005755 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 499229005756 ketol-acid reductoisomerase; Provisional; Region: PRK05479 499229005757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005758 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 499229005759 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 499229005760 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 499229005761 putative valine binding site [chemical binding]; other site 499229005762 dimer interface [polypeptide binding]; other site 499229005763 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 499229005764 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 499229005765 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 499229005766 PYR/PP interface [polypeptide binding]; other site 499229005767 dimer interface [polypeptide binding]; other site 499229005768 TPP binding site [chemical binding]; other site 499229005769 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 499229005770 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 499229005771 TPP-binding site [chemical binding]; other site 499229005772 dimer interface [polypeptide binding]; other site 499229005773 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 499229005774 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 499229005775 FeS/SAM binding site; other site 499229005776 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 499229005777 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 499229005778 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 499229005779 FeS/SAM binding site; other site 499229005780 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 499229005781 Class III ribonucleotide reductase; Region: RNR_III; cd01675 499229005782 effector binding site; other site 499229005783 active site 499229005784 Zn binding site [ion binding]; other site 499229005785 glycine loop; other site 499229005786 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 499229005787 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 499229005788 HflX GTPase family; Region: HflX; cd01878 499229005789 G1 box; other site 499229005790 GTP/Mg2+ binding site [chemical binding]; other site 499229005791 Switch I region; other site 499229005792 G2 box; other site 499229005793 G3 box; other site 499229005794 Switch II region; other site 499229005795 G4 box; other site 499229005796 G5 box; other site 499229005797 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 499229005798 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 499229005799 metal binding site [ion binding]; metal-binding site 499229005800 dimer interface [polypeptide binding]; other site 499229005801 Putative cyclase; Region: Cyclase; cl00814 499229005802 Dehydratase family; Region: ILVD_EDD; cl00340 499229005803 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 499229005804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005805 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 499229005806 Transcriptional regulators [Transcription]; Region: FadR; COG2186 499229005807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229005808 DNA-binding site [nucleotide binding]; DNA binding site 499229005809 FCD domain; Region: FCD; cl11656 499229005810 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 499229005811 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 499229005812 PYR/PP interface [polypeptide binding]; other site 499229005813 dimer interface [polypeptide binding]; other site 499229005814 TPP binding site [chemical binding]; other site 499229005815 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 499229005816 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 499229005817 TPP-binding site [chemical binding]; other site 499229005818 dimer interface [polypeptide binding]; other site 499229005819 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 499229005820 Metal-binding active site; metal-binding site 499229005821 DctM-like transporters; Region: DctM; pfam06808 499229005822 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229005823 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 499229005824 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 499229005825 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 499229005826 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 499229005827 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 499229005828 Helix-turn-helix domains; Region: HTH; cl00088 499229005829 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 499229005830 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 499229005831 active site 499229005832 FMN binding site [chemical binding]; other site 499229005833 substrate binding site [chemical binding]; other site 499229005834 putative catalytic residue [active] 499229005835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005836 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229005837 Sensory domain found in PocR; Region: PocR; pfam10114 499229005838 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 499229005839 Histidine kinase; Region: His_kinase; pfam06580 499229005840 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 499229005841 ATP binding site [chemical binding]; other site 499229005842 Mg2+ binding site [ion binding]; other site 499229005843 G-X-G motif; other site 499229005844 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 499229005845 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. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 499229005846 Walker A/P-loop; other site 499229005847 ATP binding site [chemical binding]; other site 499229005848 Q-loop/lid; other site 499229005849 ABC transporter signature motif; other site 499229005850 Walker B; other site 499229005851 D-loop; other site 499229005852 H-loop/switch region; other site 499229005853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229005854 dimer interface [polypeptide binding]; other site 499229005855 conserved gate region; other site 499229005856 putative PBP binding loops; other site 499229005857 ABC-ATPase subunit interface; other site 499229005858 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 499229005859 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 499229005860 substrate binding pocket [chemical binding]; other site 499229005861 membrane-bound complex binding site; other site 499229005862 hinge residues; other site 499229005863 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 499229005864 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 499229005865 Preprotein translocase SecG subunit; Region: SecG; cl09123 499229005866 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 499229005867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229005868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229005869 Family description; Region: UvrD_C_2; cl15862 499229005870 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 499229005871 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 499229005872 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 499229005873 enolase; Provisional; Region: eno; PRK00077 499229005874 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 499229005875 dimer interface [polypeptide binding]; other site 499229005876 metal binding site [ion binding]; metal-binding site 499229005877 substrate binding pocket [chemical binding]; other site 499229005878 Sulfatase; Region: Sulfatase; cl10460 499229005879 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 499229005880 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 499229005881 substrate binding site [chemical binding]; other site 499229005882 dimer interface [polypeptide binding]; other site 499229005883 catalytic triad [active] 499229005884 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 499229005885 Phosphoglycerate kinase; Region: PGK; pfam00162 499229005886 substrate binding site [chemical binding]; other site 499229005887 hinge regions; other site 499229005888 ADP binding site [chemical binding]; other site 499229005889 catalytic site [active] 499229005890 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 499229005891 Predicted transcriptional regulator [Transcription]; Region: COG3388 499229005892 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 499229005893 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 499229005894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005895 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 499229005896 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 499229005897 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 499229005898 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 499229005899 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 499229005900 Heat induced stress protein YflT; Region: YflT; pfam11181 499229005901 Family description; Region: VCBS; pfam13517 499229005902 Family description; Region: VCBS; pfam13517 499229005903 Family description; Region: VCBS; pfam13517 499229005904 Family description; Region: VCBS; pfam13517 499229005905 Family description; Region: VCBS; pfam13517 499229005906 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 499229005907 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 499229005908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005909 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 499229005910 aspartate kinase I; Reviewed; Region: PRK08210 499229005911 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 499229005912 nucleotide binding site [chemical binding]; other site 499229005913 substrate binding site [chemical binding]; other site 499229005914 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 499229005915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005916 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 499229005917 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 499229005918 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 499229005919 trimer interface [polypeptide binding]; other site 499229005920 putative metal binding site [ion binding]; other site 499229005921 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229005922 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 499229005923 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229005924 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229005925 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 499229005926 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 499229005927 dimer interface [polypeptide binding]; other site 499229005928 PYR/PP interface [polypeptide binding]; other site 499229005929 TPP binding site [chemical binding]; other site 499229005930 substrate binding site [chemical binding]; other site 499229005931 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 499229005932 Domain of unknown function; Region: EKR; cl11037 499229005933 4Fe-4S binding domain; Region: Fer4; cl02805 499229005934 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 499229005935 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 499229005936 TPP-binding site [chemical binding]; other site 499229005937 dimer interface [polypeptide binding]; other site 499229005938 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 499229005939 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 499229005940 Sulfatase; Region: Sulfatase; cl10460 499229005941 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 499229005942 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 499229005943 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 499229005944 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 499229005945 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 499229005946 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 499229005947 active site 499229005948 catalytic motif [active] 499229005949 Zn binding site [ion binding]; other site 499229005950 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 499229005951 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229005952 DNA-binding site [nucleotide binding]; DNA binding site 499229005953 UTRA domain; Region: UTRA; cl01230 499229005954 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 499229005955 hexamer (dimer of trimers) interface [polypeptide binding]; other site 499229005956 substrate binding site [chemical binding]; other site 499229005957 trimer interface [polypeptide binding]; other site 499229005958 Mn binding site [ion binding]; other site 499229005959 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 499229005960 TM-ABC transporter signature motif; other site 499229005961 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 499229005962 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 499229005963 TM-ABC transporter signature motif; other site 499229005964 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 499229005965 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 499229005966 Walker A/P-loop; other site 499229005967 ATP binding site [chemical binding]; other site 499229005968 Q-loop/lid; other site 499229005969 ABC transporter signature motif; other site 499229005970 Walker B; other site 499229005971 D-loop; other site 499229005972 H-loop/switch region; other site 499229005973 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 499229005974 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 499229005975 ligand binding site [chemical binding]; other site 499229005976 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 499229005977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005978 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 499229005979 active site 499229005980 catalytic triad [active] 499229005981 dimer interface [polypeptide binding]; other site 499229005982 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 499229005983 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 499229005984 ATP binding site [chemical binding]; other site 499229005985 Mg2+ binding site [ion binding]; other site 499229005986 G-X-G motif; other site 499229005987 Accessory gene regulator B; Region: AgrB; cl01873 499229005988 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 499229005989 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 499229005990 active site 499229005991 phosphorylation site [posttranslational modification] 499229005992 intermolecular recognition site; other site 499229005993 dimerization interface [polypeptide binding]; other site 499229005994 LytTr DNA-binding domain; Region: LytTR; cl04498 499229005995 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 499229005996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229005997 NAD(P) binding site [chemical binding]; other site 499229005998 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 499229005999 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 499229006000 active site 499229006001 metal binding site [ion binding]; metal-binding site 499229006002 homotetramer interface [polypeptide binding]; other site 499229006003 Protein of unknown function (DUF436); Region: DUF436; cl01860 499229006004 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 499229006005 SNF2 Helicase protein; Region: DUF3670; pfam12419 499229006006 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 499229006007 ATP binding site [chemical binding]; other site 499229006008 putative Mg++ binding site [ion binding]; other site 499229006009 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 499229006010 nucleotide binding region [chemical binding]; other site 499229006011 ATP-binding site [chemical binding]; other site 499229006012 SWIM zinc finger; Region: SWIM; cl15408 499229006013 CutC family; Region: CutC; cl01218 499229006014 hypothetical protein; Provisional; Region: PRK02947 499229006015 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 499229006016 putative active site [active] 499229006017 Creatinine amidohydrolase; Region: Creatininase; cl00618 499229006018 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 499229006019 active site 499229006020 substrate binding pocket [chemical binding]; other site 499229006021 homodimer interaction site [polypeptide binding]; other site 499229006022 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 499229006023 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 499229006024 P-loop; other site 499229006025 active site 499229006026 phosphorylation site [posttranslational modification] 499229006027 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 499229006028 Helix-turn-helix domains; Region: HTH; cl00088 499229006029 Helix-turn-helix domains; Region: HTH; cl00088 499229006030 PRD domain; Region: PRD; cl15445 499229006031 PRD domain; Region: PRD; cl15445 499229006032 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 499229006033 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 499229006034 active site 499229006035 phosphorylation site [posttranslational modification] 499229006036 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 499229006037 SEC-C motif; Region: SEC-C; pfam02810 499229006038 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 499229006039 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 499229006040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229006041 homodimer interface [polypeptide binding]; other site 499229006042 catalytic residue [active] 499229006043 intracellular protease, PfpI family; Region: PfpI; TIGR01382 499229006044 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 499229006045 proposed catalytic triad [active] 499229006046 conserved cys residue [active] 499229006047 ERCC4 domain; Region: ERCC4; cl10594 499229006048 putative mutase; Provisional; Region: PRK12383 499229006049 Sulfatase; Region: Sulfatase; cl10460 499229006050 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 499229006051 dimer interface [polypeptide binding]; other site 499229006052 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 499229006053 active site 499229006054 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 499229006055 substrate binding site [chemical binding]; other site 499229006056 catalytic residue [active] 499229006057 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 499229006058 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 499229006059 catalytic residue [active] 499229006060 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 499229006061 active site 499229006062 substrate binding pocket [chemical binding]; other site 499229006063 homodimer interaction site [polypeptide binding]; other site 499229006064 Protein of unknown function; Region: YhfT; pfam10797 499229006065 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 499229006066 PRD domain; Region: PRD; cl15445 499229006067 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 499229006068 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 499229006069 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 499229006070 active site 499229006071 motif I; other site 499229006072 motif II; other site 499229006073 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 499229006074 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 499229006075 RDD family; Region: RDD; cl00746 499229006076 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 499229006077 active site 499229006078 dimer interface [polypeptide binding]; other site 499229006079 Haemolysin-III related; Region: HlyIII; cl03831 499229006080 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 499229006081 putative homotetramer interface [polypeptide binding]; other site 499229006082 putative homodimer interface [polypeptide binding]; other site 499229006083 putative allosteric switch controlling residues; other site 499229006084 putative metal binding site [ion binding]; other site 499229006085 putative homodimer-homodimer interface [polypeptide binding]; other site 499229006086 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 499229006087 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 499229006088 metal-binding site [ion binding] 499229006089 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 499229006090 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 499229006091 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 499229006092 metal-binding site [ion binding] 499229006093 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 499229006094 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 499229006095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229006096 homodimer interface [polypeptide binding]; other site 499229006097 catalytic residue [active] 499229006098 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 499229006099 Plant ATP synthase F0; Region: YMF19; cl07975 499229006100 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229006101 dimer interface [polypeptide binding]; other site 499229006102 phosphorylation site [posttranslational modification] 499229006103 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 499229006104 ATP binding site [chemical binding]; other site 499229006105 Mg2+ binding site [ion binding]; other site 499229006106 G-X-G motif; other site 499229006107 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 499229006108 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 499229006109 active site 499229006110 phosphorylation site [posttranslational modification] 499229006111 intermolecular recognition site; other site 499229006112 dimerization interface [polypeptide binding]; other site 499229006113 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229006114 DNA binding site [nucleotide binding] 499229006115 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 499229006116 putative metal binding residues [ion binding]; other site 499229006117 signature motif; other site 499229006118 dimer interface [polypeptide binding]; other site 499229006119 polyP binding site; other site 499229006120 active site 499229006121 substrate binding site [chemical binding]; other site 499229006122 acceptor-phosphate pocket; other site 499229006123 CotH protein; Region: CotH; pfam08757 499229006124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229006125 G1 box; other site 499229006126 GTP/Mg2+ binding site [chemical binding]; other site 499229006127 G3 box; other site 499229006128 Switch II region; other site 499229006129 G4 box; other site 499229006130 G5 box; other site 499229006131 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 499229006132 putative hexamer interface [polypeptide binding]; other site 499229006133 putative hexagonal pore; other site 499229006134 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 499229006135 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 499229006136 active site 499229006137 metal binding site [ion binding]; metal-binding site 499229006138 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 499229006139 intersubunit interface [polypeptide binding]; other site 499229006140 active site 499229006141 catalytic residue [active] 499229006142 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 499229006143 uncharacterized xylulose kinase-like proteins, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 499229006144 N- and C-terminal domain interface [polypeptide binding]; other site 499229006145 active site 499229006146 catalytic site [active] 499229006147 metal binding site [ion binding]; metal-binding site 499229006148 xylulose binding site [chemical binding]; other site 499229006149 ATP binding site [chemical binding]; other site 499229006150 putative homodimer interface [polypeptide binding]; other site 499229006151 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 499229006152 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 499229006153 active site 499229006154 catalytic tetrad [active] 499229006155 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 499229006156 TM-ABC transporter signature motif; other site 499229006157 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 499229006158 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 499229006159 Walker A/P-loop; other site 499229006160 ATP binding site [chemical binding]; other site 499229006161 Q-loop/lid; other site 499229006162 ABC transporter signature motif; other site 499229006163 Walker B; other site 499229006164 D-loop; other site 499229006165 H-loop/switch region; other site 499229006166 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 499229006167 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 499229006168 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 499229006169 putative ligand binding site [chemical binding]; other site 499229006170 Transcriptional regulators [Transcription]; Region: PurR; COG1609 499229006171 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 499229006172 DNA binding site [nucleotide binding] 499229006173 domain linker motif; other site 499229006174 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 499229006175 dimerization interface [polypeptide binding]; other site 499229006176 ligand binding site [chemical binding]; other site 499229006177 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 499229006178 Phosphate transporter family; Region: PHO4; cl00396 499229006179 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 499229006180 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 499229006181 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 499229006182 DNA binding site [nucleotide binding] 499229006183 active site 499229006184 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 499229006185 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 499229006186 active site 499229006187 HIGH motif; other site 499229006188 dimer interface [polypeptide binding]; other site 499229006189 KMSKS motif; other site 499229006190 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 499229006191 Transposase; Region: DEDD_Tnp_IS110; pfam01548 499229006192 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 499229006193 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 499229006194 Rod binding protein; Region: Rod-binding; cl01626 499229006195 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 499229006196 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 499229006197 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 499229006198 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 499229006199 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 499229006200 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 499229006201 rod shape-determining protein Mbl; Provisional; Region: PRK13928 499229006202 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 499229006203 ATP binding site [chemical binding]; other site 499229006204 profilin binding site; other site 499229006205 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229006206 Peptidase family M23; Region: Peptidase_M23; pfam01551 499229006207 stage II sporulation protein D; Region: spore_II_D; TIGR02870 499229006208 Stage II sporulation protein; Region: SpoIID; pfam08486 499229006209 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 499229006210 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 499229006211 hinge; other site 499229006212 active site 499229006213 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 499229006214 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 499229006215 Ligand binding site; other site 499229006216 Putative Catalytic site; other site 499229006217 DXD motif; other site 499229006218 ATP synthase subunit D; Region: ATP-synt_D; cl00613 499229006219 V-type ATP synthase subunit B; Provisional; Region: PRK04196 499229006220 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 499229006221 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 499229006222 Walker A motif homologous position; other site 499229006223 Walker B motif; other site 499229006224 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 499229006225 V-type ATP synthase subunit A; Provisional; Region: PRK04192 499229006226 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 499229006227 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 499229006228 Walker A motif/ATP binding site; other site 499229006229 Walker B motif; other site 499229006230 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 499229006231 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 499229006232 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 499229006233 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 499229006234 Plant ATP synthase F0; Region: YMF19; cl07975 499229006235 ATP synthase (E/31 kDa) subunit; Region: vATP-synt_E; pfam01991 499229006236 ATP synthase subunit C; Region: ATP-synt_C; cl00466 499229006237 ATP synthase subunit C; Region: ATP-synt_C; cl00466 499229006238 V-type ATP synthase subunit I; Validated; Region: PRK05771 499229006239 Plant ATP synthase F0; Region: YMF19; cl07975 499229006240 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 499229006241 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229006242 AAA domain; Region: AAA_23; pfam13476 499229006243 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 499229006244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229006245 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 499229006246 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 499229006247 active site 499229006248 homodimer interface [polypeptide binding]; other site 499229006249 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 499229006250 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 499229006251 Mg++ binding site [ion binding]; other site 499229006252 putative catalytic motif [active] 499229006253 substrate binding site [chemical binding]; other site 499229006254 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 499229006255 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 499229006256 PYR/PP interface [polypeptide binding]; other site 499229006257 dimer interface [polypeptide binding]; other site 499229006258 TPP binding site [chemical binding]; other site 499229006259 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 499229006260 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 499229006261 TPP-binding site [chemical binding]; other site 499229006262 dimer interface [polypeptide binding]; other site 499229006263 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 499229006264 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229006265 dimer interface [polypeptide binding]; other site 499229006266 conserved gate region; other site 499229006267 putative PBP binding loops; other site 499229006268 ABC-ATPase subunit interface; other site 499229006269 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 499229006270 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229006271 dimer interface [polypeptide binding]; other site 499229006272 conserved gate region; other site 499229006273 putative PBP binding loops; other site 499229006274 ABC-ATPase subunit interface; other site 499229006275 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 499229006276 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 499229006277 Transcriptional regulators [Transcription]; Region: FadR; COG2186 499229006278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229006279 DNA-binding site [nucleotide binding]; DNA binding site 499229006280 FCD domain; Region: FCD; cl11656 499229006281 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 499229006282 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 499229006283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 499229006284 NMT1-like family; Region: NMT1_2; cl15260 499229006285 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 499229006286 catalytic motif [active] 499229006287 Zn binding site [ion binding]; other site 499229006288 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 499229006289 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 499229006290 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 499229006291 putative active site [active] 499229006292 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 499229006293 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 499229006294 Acetokinase family; Region: Acetate_kinase; cl01029 499229006295 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 499229006296 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 499229006297 putative active site cavity [active] 499229006298 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 499229006299 active site 499229006300 phosphorylation site [posttranslational modification] 499229006301 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 499229006302 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 499229006303 motif II; other site 499229006304 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 499229006305 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229006306 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 499229006307 active site 499229006308 P-loop; other site 499229006309 phosphorylation site [posttranslational modification] 499229006310 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 499229006311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006312 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 499229006313 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229006314 active site 499229006315 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 499229006316 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 499229006317 dimer interface [polypeptide binding]; other site 499229006318 glycine-pyridoxal phosphate binding site [chemical binding]; other site 499229006319 active site 499229006320 folate binding site [chemical binding]; other site 499229006321 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 499229006322 Low molecular weight phosphatase family; Region: LMWPc; cd00115 499229006323 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 499229006324 active site 499229006325 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 499229006326 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 499229006327 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 499229006328 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 499229006329 S-adenosylmethionine binding site [chemical binding]; other site 499229006330 peptide chain release factor 1; Validated; Region: prfA; PRK00591 499229006331 RF-1 domain; Region: RF-1; cl02875 499229006332 RF-1 domain; Region: RF-1; cl02875 499229006333 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 499229006334 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 499229006335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 499229006336 Major Facilitator Superfamily; Region: MFS_1; pfam07690 499229006337 putative substrate translocation pore; other site 499229006338 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 499229006339 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 499229006340 FeS/SAM binding site; other site 499229006341 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 499229006342 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 499229006343 putative catalytic cysteine [active] 499229006344 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 499229006345 nucleotide binding site [chemical binding]; other site 499229006346 homotetrameric interface [polypeptide binding]; other site 499229006347 putative phosphate binding site [ion binding]; other site 499229006348 putative allosteric binding site; other site 499229006349 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229006350 Zn2+ binding site [ion binding]; other site 499229006351 Mg2+ binding site [ion binding]; other site 499229006352 hypothetical protein; Provisional; Region: PRK03881 499229006353 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 499229006354 AMMECR1; Region: AMMECR1; cl00911 499229006355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 499229006356 Major Facilitator Superfamily; Region: MFS_1; pfam07690 499229006357 putative substrate translocation pore; other site 499229006358 Predicted dehydrogenase [General function prediction only]; Region: COG5322 499229006359 NADP binding domain of methylene tetrahydromethanopterin dehydrogenase; Region: NAD_bind_H4MPT_DH; cd01078 499229006360 NADP binding site [chemical binding]; other site 499229006361 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 499229006362 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 499229006363 FMN binding site [chemical binding]; other site 499229006364 active site 499229006365 catalytic residues [active] 499229006366 substrate binding site [chemical binding]; other site 499229006367 Type III pantothenate kinase; Region: Pan_kinase; cl09130 499229006368 Predicted membrane protein [Function unknown]; Region: COG4684 499229006369 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 499229006370 Protein of unknown function, DUF606; Region: DUF606; cl01273 499229006371 FtsH Extracellular; Region: FtsH_ext; pfam06480 499229006372 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 499229006373 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229006374 Walker A motif; other site 499229006375 ATP binding site [chemical binding]; other site 499229006376 Walker B motif; other site 499229006377 arginine finger; other site 499229006378 Peptidase family M41; Region: Peptidase_M41; pfam01434 499229006379 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229006380 active site 499229006381 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 499229006382 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 499229006383 Helix-turn-helix domains; Region: HTH; cl00088 499229006384 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 499229006385 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229006386 dimer interface [polypeptide binding]; other site 499229006387 putative CheW interface [polypeptide binding]; other site 499229006388 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229006389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006390 NAD(P) binding site [chemical binding]; other site 499229006391 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 499229006392 GntP family permease; Region: GntP_permease; pfam02447 499229006393 Glycerate kinase family; Region: Gly_kinase; cl00841 499229006394 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 499229006395 uncharacterized ygcE-like proteins, N-terminal domain; Region: FGGY_ygcE_like; cd07779 499229006396 putative N- and C-terminal domain interface [polypeptide binding]; other site 499229006397 putative active site [active] 499229006398 putative MgATP binding site [chemical binding]; other site 499229006399 catalytic site [active] 499229006400 metal binding site [ion binding]; metal-binding site 499229006401 putative carbohydrate binding site [chemical binding]; other site 499229006402 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 499229006403 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 499229006404 hypothetical protein; Provisional; Region: PRK08185 499229006405 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 499229006406 intersubunit interface [polypeptide binding]; other site 499229006407 active site 499229006408 zinc binding site [ion binding]; other site 499229006409 Na+ binding site [ion binding]; other site 499229006410 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 499229006411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006412 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 499229006413 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 499229006414 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 499229006415 putative active site [active] 499229006416 KduI/IolB family; Region: KduI; cl01508 499229006417 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 499229006418 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 499229006419 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 499229006420 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 499229006421 NADP binding site [chemical binding]; other site 499229006422 homodimer interface [polypeptide binding]; other site 499229006423 active site 499229006424 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 499229006425 Ligand Binding Site [chemical binding]; other site 499229006426 B3/4 domain; Region: B3_4; cl11458 499229006427 stage II sporulation protein E; Region: spore_II_E; TIGR02865 499229006428 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; cl00120 499229006429 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 499229006430 FMN binding site [chemical binding]; other site 499229006431 dimer interface [polypeptide binding]; other site 499229006432 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 499229006433 FMN binding site [chemical binding]; other site 499229006434 dimer interface [polypeptide binding]; other site 499229006435 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 499229006436 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 499229006437 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 499229006438 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 499229006439 active site 499229006440 Domain of unknown function (DUF377); Region: DUF377; pfam04041 499229006441 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 499229006442 active site 499229006443 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 499229006444 putative dimer interface [polypeptide binding]; other site 499229006445 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 499229006446 core dimer interface [polypeptide binding]; other site 499229006447 peripheral dimer interface [polypeptide binding]; other site 499229006448 L10 interface [polypeptide binding]; other site 499229006449 L11 interface [polypeptide binding]; other site 499229006450 putative EF-Tu interaction site [polypeptide binding]; other site 499229006451 putative EF-G interaction site [polypeptide binding]; other site 499229006452 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 499229006453 23S rRNA interface [nucleotide binding]; other site 499229006454 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 499229006455 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 499229006456 mRNA/rRNA interface [nucleotide binding]; other site 499229006457 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 499229006458 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 499229006459 23S rRNA interface [nucleotide binding]; other site 499229006460 L7/L12 interface [polypeptide binding]; other site 499229006461 putative thiostrepton binding site; other site 499229006462 L25 interface [polypeptide binding]; other site 499229006463 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 499229006464 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 499229006465 putative homodimer interface [polypeptide binding]; other site 499229006466 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 499229006467 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 499229006468 Transposase [DNA replication, recombination, and repair]; Region: COG5421 499229006469 elongation factor Tu; Reviewed; Region: PRK00049 499229006470 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 499229006471 G1 box; other site 499229006472 GEF interaction site [polypeptide binding]; other site 499229006473 GTP/Mg2+ binding site [chemical binding]; other site 499229006474 Switch I region; other site 499229006475 G2 box; other site 499229006476 G3 box; other site 499229006477 Switch II region; other site 499229006478 G4 box; other site 499229006479 G5 box; other site 499229006480 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 499229006481 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 499229006482 Antibiotic Binding Site [chemical binding]; other site 499229006483 RNA polymerase factor sigma-70; Validated; Region: PRK08295 499229006484 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229006485 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229006486 YacP-like NYN domain; Region: NYN_YacP; cl01491 499229006487 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 499229006488 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 499229006489 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 499229006490 Thymidylate synthase complementing protein; Region: Thy1; cl03630 499229006491 Thymidylate synthase complementing protein; Region: Thy1; cl03630 499229006492 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cl00258 499229006493 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 499229006494 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 499229006495 active site 499229006496 HIGH motif; other site 499229006497 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 499229006498 KMSKS motif; other site 499229006499 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 499229006500 tRNA binding surface [nucleotide binding]; other site 499229006501 anticodon binding site; other site 499229006502 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 499229006503 serine O-acetyltransferase; Region: cysE; TIGR01172 499229006504 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 499229006505 trimer interface [polypeptide binding]; other site 499229006506 active site 499229006507 substrate binding site [chemical binding]; other site 499229006508 CoA binding site [chemical binding]; other site 499229006509 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 499229006510 homotrimer interaction site [polypeptide binding]; other site 499229006511 zinc binding site [ion binding]; other site 499229006512 CDP-binding sites; other site 499229006513 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 499229006514 substrate binding site; other site 499229006515 dimer interface; other site 499229006516 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 499229006517 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 499229006518 putative active site [active] 499229006519 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 499229006520 DNA repair protein RadA; Provisional; Region: PRK11823 499229006521 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 499229006522 Walker A motif/ATP binding site; other site 499229006523 ATP binding site [chemical binding]; other site 499229006524 Walker B motif; other site 499229006525 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 499229006526 Clp protease ATP binding subunit; Region: clpC; CHL00095 499229006527 Clp amino terminal domain; Region: Clp_N; pfam02861 499229006528 Clp amino terminal domain; Region: Clp_N; pfam02861 499229006529 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229006530 Walker A motif; other site 499229006531 ATP binding site [chemical binding]; other site 499229006532 Walker B motif; other site 499229006533 arginine finger; other site 499229006534 UvrB/uvrC motif; Region: UVR; pfam02151 499229006535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229006536 Walker A motif; other site 499229006537 ATP binding site [chemical binding]; other site 499229006538 Walker B motif; other site 499229006539 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 499229006540 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 499229006541 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 499229006542 ADP binding site [chemical binding]; other site 499229006543 phosphagen binding site; other site 499229006544 substrate specificity loop; other site 499229006545 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 499229006546 UvrB/uvrC motif; Region: UVR; pfam02151 499229006547 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 499229006548 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 499229006549 elongation factor G; Reviewed; Region: PRK12740 499229006550 G1 box; other site 499229006551 putative GEF interaction site [polypeptide binding]; other site 499229006552 GTP/Mg2+ binding site [chemical binding]; other site 499229006553 Switch I region; other site 499229006554 G2 box; other site 499229006555 G3 box; other site 499229006556 Switch II region; other site 499229006557 G4 box; other site 499229006558 G5 box; other site 499229006559 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 499229006560 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 499229006561 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 499229006562 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 499229006563 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 499229006564 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 499229006565 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 guanine...; Region: IMPDH; cd00381 499229006566 active site 499229006567 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 499229006568 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 499229006569 Helix-turn-helix domains; Region: HTH; cl00088 499229006570 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229006571 Walker A motif; other site 499229006572 ATP binding site [chemical binding]; other site 499229006573 Walker B motif; other site 499229006574 arginine finger; other site 499229006575 Transcriptional antiterminator [Transcription]; Region: COG3933 499229006576 PRD domain; Region: PRD; cl15445 499229006577 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229006578 active pocket/dimerization site; other site 499229006579 active site 499229006580 phosphorylation site [posttranslational modification] 499229006581 PRD domain; Region: PRD; cl15445 499229006582 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 499229006583 active site 499229006584 P-loop; other site 499229006585 phosphorylation site [posttranslational modification] 499229006586 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229006587 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 499229006588 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 499229006589 methionine cluster; other site 499229006590 active site 499229006591 phosphorylation site [posttranslational modification] 499229006592 metal binding site [ion binding]; metal-binding site 499229006593 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 499229006594 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 499229006595 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 499229006596 NAD binding site [chemical binding]; other site 499229006597 sugar binding site [chemical binding]; other site 499229006598 divalent metal binding site [ion binding]; other site 499229006599 tetramer (dimer of dimers) interface [polypeptide binding]; other site 499229006600 dimer interface [polypeptide binding]; other site 499229006601 thymidine kinase; Provisional; Region: PRK04296 499229006602 Putative aldolase; Region: Aldolase_2; cl00871 499229006603 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 499229006604 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 499229006605 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 499229006606 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08332 499229006607 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 499229006608 active site 499229006609 TSCPD domain; Region: TSCPD; cl14834 499229006610 ferric uptake regulator; Provisional; Region: fur; PRK09462 499229006611 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 499229006612 metal binding site 2 [ion binding]; metal-binding site 499229006613 putative DNA binding helix; other site 499229006614 metal binding site 1 [ion binding]; metal-binding site 499229006615 dimer interface [polypeptide binding]; other site 499229006616 structural Zn2+ binding site [ion binding]; other site 499229006617 DNA repair protein RadA; Provisional; Region: PRK11823 499229006618 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 499229006619 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 499229006620 active site 499229006621 nucleophile elbow; other site 499229006622 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 499229006623 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 499229006624 TPP-binding site [chemical binding]; other site 499229006625 putative dimer interface [polypeptide binding]; other site 499229006626 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 499229006627 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 499229006628 dimer interface [polypeptide binding]; other site 499229006629 PYR/PP interface [polypeptide binding]; other site 499229006630 TPP binding site [chemical binding]; other site 499229006631 substrate binding site [chemical binding]; other site 499229006632 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 499229006633 4Fe-4S binding domain; Region: Fer4; cl02805 499229006634 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 499229006635 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 499229006636 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 499229006637 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 499229006638 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 499229006639 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 499229006640 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 499229006641 dinuclear metal binding motif [ion binding]; other site 499229006642 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 499229006643 CCC1-related family of proteins; Region: CCC1_like; cd01059 499229006644 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 499229006645 active site 499229006646 ADP/pyrophosphate binding site [chemical binding]; other site 499229006647 dimerization interface [polypeptide binding]; other site 499229006648 allosteric effector site; other site 499229006649 fructose-1,6-bisphosphate binding site; other site 499229006650 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 499229006651 Ribulose bisphosphate carboxylase like proteins, Rubisco-Form IV; Region: RuBisCO_IV_RLP; cd08205 499229006652 dimer interface [polypeptide binding]; other site 499229006653 active site 499229006654 catalytic residue [active] 499229006655 metal binding site [ion binding]; metal-binding site 499229006656 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 499229006657 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 499229006658 putative N- and C-terminal domain interface [polypeptide binding]; other site 499229006659 putative active site [active] 499229006660 putative MgATP binding site [chemical binding]; other site 499229006661 catalytic site [active] 499229006662 metal binding site [ion binding]; metal-binding site 499229006663 putative xylulose binding site [chemical binding]; other site 499229006664 glycerol kinase; Provisional; Region: glpK; PRK00047 499229006665 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 499229006666 N- and C-terminal domain interface [polypeptide binding]; other site 499229006667 active site 499229006668 MgATP binding site [chemical binding]; other site 499229006669 catalytic site [active] 499229006670 metal binding site [ion binding]; metal-binding site 499229006671 glycerol binding site [chemical binding]; other site 499229006672 homotetramer interface [polypeptide binding]; other site 499229006673 homodimer interface [polypeptide binding]; other site 499229006674 FBP binding site [chemical binding]; other site 499229006675 protein IIAGlc interface [polypeptide binding]; other site 499229006676 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 499229006677 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 499229006678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 499229006679 Predicted dehydrogenase [General function prediction only]; Region: COG0579 499229006680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006681 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 499229006682 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 499229006683 substrate binding site [chemical binding]; other site 499229006684 dimer interface [polypeptide binding]; other site 499229006685 catalytic triad [active] 499229006686 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 499229006687 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 499229006688 Helix-turn-helix domains; Region: HTH; cl00088 499229006689 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 499229006690 DAK2 domain; Region: Dak2; cl03685 499229006691 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 499229006692 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 499229006693 FOG: CBS domain [General function prediction only]; Region: COG0517 499229006694 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 499229006695 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 499229006696 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 499229006697 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 499229006698 ATP binding site [chemical binding]; other site 499229006699 putative Mg++ binding site [ion binding]; other site 499229006700 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 499229006701 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 499229006702 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 499229006703 HsdM N-terminal domain; Region: HsdM_N; pfam12161 499229006704 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 499229006705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006706 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 499229006707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 499229006708 putative substrate translocation pore; other site 499229006709 Acetokinase family; Region: Acetate_kinase; cl01029 499229006710 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 499229006711 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 499229006712 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 499229006713 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 499229006714 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 499229006715 dimer interface [polypeptide binding]; other site 499229006716 PYR/PP interface [polypeptide binding]; other site 499229006717 TPP binding site [chemical binding]; other site 499229006718 substrate binding site [chemical binding]; other site 499229006719 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 499229006720 TPP-binding site; other site 499229006721 4Fe-4S binding domain; Region: Fer4; cl02805 499229006722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 499229006723 YheO-like PAS domain; Region: PAS_6; pfam08348 499229006724 Helix-turn-helix domains; Region: HTH; cl00088 499229006725 Uncharacterized conserved protein [Function unknown]; Region: COG5276 499229006726 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 499229006727 ABC-2 type transporter; Region: ABC2_membrane; cl11417 499229006728 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229006729 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 499229006730 Walker A/P-loop; other site 499229006731 ATP binding site [chemical binding]; other site 499229006732 Q-loop/lid; other site 499229006733 ABC transporter signature motif; other site 499229006734 Walker B; other site 499229006735 D-loop; other site 499229006736 H-loop/switch region; other site 499229006737 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 499229006738 dimerization interface [polypeptide binding]; other site 499229006739 putative DNA binding site [nucleotide binding]; other site 499229006740 Predicted transcriptional regulator [General function prediction only]; Region: COG2522 499229006741 putative Zn2+ binding site [ion binding]; other site 499229006742 protein tyrosine phosphatase; Provisional; Region: PHA02742 499229006743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 499229006744 metal binding site [ion binding]; metal-binding site 499229006745 active site 499229006746 I-site; other site 499229006747 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 499229006748 homodimer interaction site [polypeptide binding]; other site 499229006749 cofactor binding site; other site 499229006750 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cl00166 499229006751 methionine cluster; other site 499229006752 active site 499229006753 phosphorylation site [posttranslational modification] 499229006754 metal binding site [ion binding]; metal-binding site 499229006755 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 499229006756 active site 499229006757 dimer interface [polypeptide binding]; other site 499229006758 catalytic nucleophile [active] 499229006759 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 499229006760 hypothetical protein; Provisional; Region: PRK07205 499229006761 metal binding site [ion binding]; metal-binding site 499229006762 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 499229006763 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 499229006764 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229006765 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 499229006766 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 499229006767 active site 499229006768 P-loop; other site 499229006769 phosphorylation site [posttranslational modification] 499229006770 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 499229006771 active site 499229006772 phosphorylation site [posttranslational modification] 499229006773 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 499229006774 Helix-turn-helix domains; Region: HTH; cl00088 499229006775 Helix-turn-helix domains; Region: HTH; cl00088 499229006776 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 499229006777 P-loop; other site 499229006778 active site 499229006779 phosphorylation site [posttranslational modification] 499229006780 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 499229006781 active site 499229006782 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 499229006783 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 499229006784 dihydropteroate synthase; Region: DHPS; TIGR01496 499229006785 substrate binding pocket [chemical binding]; other site 499229006786 dimer interface [polypeptide binding]; other site 499229006787 inhibitor binding site; inhibition site 499229006788 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 499229006789 catalytic center binding site [active] 499229006790 ATP binding site [chemical binding]; other site 499229006791 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 499229006792 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 499229006793 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 499229006794 active site 499229006795 FMN binding site [chemical binding]; other site 499229006796 substrate binding site [chemical binding]; other site 499229006797 putative catalytic residue [active] 499229006798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006799 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229006800 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 499229006801 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 499229006802 active site 499229006803 P-loop; other site 499229006804 phosphorylation site [posttranslational modification] 499229006805 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cl00166 499229006806 active site 499229006807 methionine cluster; other site 499229006808 phosphorylation site [posttranslational modification] 499229006809 metal binding site [ion binding]; metal-binding site 499229006810 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 499229006811 Helix-turn-helix domains; Region: HTH; cl00088 499229006812 Helix-turn-helix domains; Region: HTH; cl00088 499229006813 PRD domain; Region: PRD; cl15445 499229006814 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 499229006815 P-loop; other site 499229006816 active site 499229006817 phosphorylation site [posttranslational modification] 499229006818 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 499229006819 active site 499229006820 phosphorylation site [posttranslational modification] 499229006821 Propionate catabolism activator; Region: PrpR_N; pfam06506 499229006822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229006823 dimer interface [polypeptide binding]; other site 499229006824 putative CheW interface [polypeptide binding]; other site 499229006825 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 499229006826 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 499229006827 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 499229006828 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229006829 PHP domain; Region: PHP; pfam02811 499229006830 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 499229006831 DctM-like transporters; Region: DctM; pfam06808 499229006832 NMT1-like family; Region: NMT1_2; cl15260 499229006833 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 499229006834 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 499229006835 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 499229006836 CHAT domain; Region: CHAT; pfam12770 499229006837 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 499229006838 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 499229006839 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 499229006840 aconitate hydratase; Validated; Region: PRK07229 499229006841 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 499229006842 substrate binding site [chemical binding]; other site 499229006843 ligand binding site [chemical binding]; other site 499229006844 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 499229006845 substrate binding site [chemical binding]; other site 499229006846 putative hydratase; Provisional; Region: PRK11413 499229006847 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 499229006848 substrate binding site [chemical binding]; other site 499229006849 ligand binding site [chemical binding]; other site 499229006850 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 499229006851 substrate binding site [chemical binding]; other site 499229006852 tartrate dehydrogenase; Provisional; Region: PRK08194 499229006853 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 499229006854 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 499229006855 PrpF protein; Region: PrpF; pfam04303 499229006856 PrpF protein; Region: PrpF; pfam04303 499229006857 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 499229006858 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 499229006859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 499229006860 Helix-turn-helix domains; Region: HTH; cl00088 499229006861 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 499229006862 dimerization interface [polypeptide binding]; other site 499229006863 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 499229006864 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 499229006865 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 499229006866 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 499229006867 active site 499229006868 nucleotide binding site [chemical binding]; other site 499229006869 HIGH motif; other site 499229006870 KMSKS motif; other site 499229006871 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 499229006872 Predicted permease; Region: DUF318; pfam03773 499229006873 Predicted permeases [General function prediction only]; Region: COG0701 499229006874 Low molecular weight phosphatase family; Region: LMWPc; cd00115 499229006875 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 499229006876 active site 499229006877 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 499229006878 dimerization interface [polypeptide binding]; other site 499229006879 putative DNA binding site [nucleotide binding]; other site 499229006880 putative Zn2+ binding site [ion binding]; other site 499229006881 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 499229006882 substrate binding site [chemical binding]; other site 499229006883 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 499229006884 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 499229006885 substrate binding site [chemical binding]; other site 499229006886 ligand binding site [chemical binding]; other site 499229006887 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 499229006888 GntP family permease; Region: GntP_permease; pfam02447 499229006889 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 499229006890 PemK-like protein; Region: PemK; cl00995 499229006891 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229006892 DEAD-like helicases superfamily; Region: DEXDc; smart00487 499229006893 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 499229006894 ATP binding site [chemical binding]; other site 499229006895 putative Mg++ binding site [ion binding]; other site 499229006896 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 499229006897 nucleotide binding region [chemical binding]; other site 499229006898 ATP-binding site [chemical binding]; other site 499229006899 HIRAN domain; Region: HIRAN; cl07418 499229006900 TIR domain; Region: TIR_2; cl15770 499229006901 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 499229006902 Catalytic domain of Protein Kinases; Region: PKc; cd00180 499229006903 active site 499229006904 ATP binding site [chemical binding]; other site 499229006905 substrate binding site [chemical binding]; other site 499229006906 activation loop (A-loop); other site 499229006907 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229006908 binding surface 499229006909 TPR motif; other site 499229006910 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 499229006911 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229006912 binding surface 499229006913 Tetratricopeptide repeat; Region: TPR_16; pfam13432 499229006914 TPR motif; other site 499229006915 HerA helicase [Replication, recombination, and repair]; Region: COG0433 499229006916 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 499229006917 Domain of unknown function DUF87; Region: DUF87; pfam01935 499229006918 YjcQ protein; Region: YjcQ; pfam09639 499229006919 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 499229006920 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 499229006921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006922 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 499229006923 recombination protein RecR; Reviewed; Region: recR; PRK00076 499229006924 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 499229006925 RecR protein; Region: RecR; pfam02132 499229006926 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 499229006927 putative active site [active] 499229006928 putative metal-binding site [ion binding]; other site 499229006929 tetramer interface [polypeptide binding]; other site 499229006930 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 499229006931 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 499229006932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229006933 Walker A motif; other site 499229006934 ATP binding site [chemical binding]; other site 499229006935 Walker B motif; other site 499229006936 arginine finger; other site 499229006937 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 499229006938 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 499229006939 nucleoside/Zn binding site; other site 499229006940 dimer interface [polypeptide binding]; other site 499229006941 catalytic motif [active] 499229006942 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 499229006943 Coenzyme A binding pocket [chemical binding]; other site 499229006944 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 499229006945 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 499229006946 NodB motif; other site 499229006947 active site 499229006948 catalytic site [active] 499229006949 metal binding site [ion binding]; metal-binding site 499229006950 Protein of unknown function (DUF503); Region: DUF503; cl00669 499229006951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229006952 dimer interface [polypeptide binding]; other site 499229006953 conserved gate region; other site 499229006954 putative PBP binding loops; other site 499229006955 ABC-ATPase subunit interface; other site 499229006956 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 499229006957 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. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 499229006958 Walker A/P-loop; other site 499229006959 ATP binding site [chemical binding]; other site 499229006960 Q-loop/lid; other site 499229006961 ABC transporter signature motif; other site 499229006962 Walker B; other site 499229006963 D-loop; other site 499229006964 H-loop/switch region; other site 499229006965 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 499229006966 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229006967 dimer interface [polypeptide binding]; other site 499229006968 conserved gate region; other site 499229006969 putative PBP binding loops; other site 499229006970 ABC-ATPase subunit interface; other site 499229006971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229006972 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 499229006973 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 499229006974 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 499229006975 substrate binding pocket [chemical binding]; other site 499229006976 membrane-bound complex binding site; other site 499229006977 hinge residues; other site 499229006978 PilX N-terminal; Region: PilX_N; pfam14341 499229006979 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 499229006980 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 499229006981 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 499229006982 substrate binding site [chemical binding]; other site 499229006983 tetramer interface [polypeptide binding]; other site 499229006984 catalytic residue [active] 499229006985 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 499229006986 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 499229006987 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 499229006988 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229006989 Walker A motif; other site 499229006990 ATP binding site [chemical binding]; other site 499229006991 Walker B motif; other site 499229006992 arginine finger; other site 499229006993 Helix-turn-helix domains; Region: HTH; cl00088 499229006994 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229006995 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 499229006996 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229006997 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 499229006998 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 499229006999 active site 499229007000 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 499229007001 active site 499229007002 Transcriptional regulators [Transcription]; Region: FadR; COG2186 499229007003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229007004 DNA-binding site [nucleotide binding]; DNA binding site 499229007005 FCD domain; Region: FCD; cl11656 499229007006 L-lactate permease; Region: Lactate_perm; cl00701 499229007007 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 499229007008 Ligand binding site [chemical binding]; other site 499229007009 Electron transfer flavoprotein domain; Region: ETF; pfam01012 499229007010 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 499229007011 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 499229007012 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 499229007013 FAD binding domain; Region: FAD_binding_4; pfam01565 499229007014 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 499229007015 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 499229007016 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 499229007017 Uncharacterized conserved protein [Function unknown]; Region: COG3461 499229007018 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 499229007019 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 499229007020 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 499229007021 NMT1-like family; Region: NMT1_2; cl15260 499229007022 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 499229007023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229007024 dimer interface [polypeptide binding]; other site 499229007025 conserved gate region; other site 499229007026 putative PBP binding loops; other site 499229007027 ABC-ATPase subunit interface; other site 499229007028 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 499229007029 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 499229007030 Walker A/P-loop; other site 499229007031 ATP binding site [chemical binding]; other site 499229007032 Q-loop/lid; other site 499229007033 ABC transporter signature motif; other site 499229007034 Walker B; other site 499229007035 D-loop; other site 499229007036 H-loop/switch region; other site 499229007037 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 499229007038 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 499229007039 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 499229007040 amino acid transporter; Region: 2A0306; TIGR00909 499229007041 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 499229007042 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 499229007043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229007044 homodimer interface [polypeptide binding]; other site 499229007045 catalytic residue [active] 499229007046 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 499229007047 non-specific DNA binding site [nucleotide binding]; other site 499229007048 salt bridge; other site 499229007049 sequence-specific DNA binding site [nucleotide binding]; other site 499229007050 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 499229007051 non-specific DNA binding site [nucleotide binding]; other site 499229007052 salt bridge; other site 499229007053 sequence-specific DNA binding site [nucleotide binding]; other site 499229007054 Helix-turn-helix domains; Region: HTH; cl00088 499229007055 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 499229007056 Helix-turn-helix domains; Region: HTH; cl00088 499229007057 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 499229007058 putative active site [active] 499229007059 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 499229007060 oligomerization interface [polypeptide binding]; other site 499229007061 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 499229007062 RelB antitoxin; Region: RelB; cl01171 499229007063 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 499229007064 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 499229007065 RelB antitoxin; Region: RelB; cl01171 499229007066 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 499229007067 PemK-like protein; Region: PemK; cl00995 499229007068 YokU-like protein; Region: YokU; cl15819 499229007069 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 499229007070 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 499229007071 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 499229007072 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 499229007073 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 499229007074 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 499229007075 DNA binding site [nucleotide binding] 499229007076 Int/Topo IB signature motif; other site 499229007077 active site 499229007078 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 499229007079 active site 499229007080 metal binding site [ion binding]; metal-binding site 499229007081 Sporulation related domain; Region: SPOR; cl10051 499229007082 Holin family; Region: Phage_holin_4; cl01989 499229007083 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 499229007084 Phage tail protein; Region: Sipho_tail; pfam05709 499229007085 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 499229007086 MAEBL; Provisional; Region: PTZ00121 499229007087 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 499229007088 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 499229007089 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 499229007090 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 499229007091 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 499229007092 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 499229007093 oligomerization interface [polypeptide binding]; other site 499229007094 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 499229007095 Phage capsid family; Region: Phage_capsid; pfam05065 499229007096 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 499229007097 oligomer interface [polypeptide binding]; other site 499229007098 active site residues [active] 499229007099 Phage portal protein; Region: Phage_portal; pfam04860 499229007100 Phage-related protein [Function unknown]; Region: COG4695; cl01923 499229007101 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 499229007102 Phage Terminase; Region: Terminase_1; pfam03354 499229007103 Phage terminase, small subunit; Region: Terminase_4; cl01525 499229007104 ParB-like nuclease domain; Region: ParBc; cl02129 499229007105 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 499229007106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229007107 RelB antitoxin; Region: RelB; cl01171 499229007108 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 499229007109 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 499229007110 active site 499229007111 DEAD-like helicases superfamily; Region: DEXDc; smart00487 499229007112 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 499229007113 ATP binding site [chemical binding]; other site 499229007114 putative Mg++ binding site [ion binding]; other site 499229007115 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 499229007116 nucleotide binding region [chemical binding]; other site 499229007117 ATP-binding site [chemical binding]; other site 499229007118 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 499229007119 Virulence-associated protein E; Region: VirE; pfam05272 499229007120 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 499229007121 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 499229007122 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 499229007123 active site 499229007124 DNA binding site [nucleotide binding] 499229007125 catalytic site [active] 499229007126 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 499229007127 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 499229007128 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 499229007129 Helix-turn-helix domains; Region: HTH; cl00088 499229007130 Domain of unknown function (DUF955); Region: DUF955; cl01076 499229007131 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 499229007132 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 499229007133 non-specific DNA binding site [nucleotide binding]; other site 499229007134 salt bridge; other site 499229007135 sequence-specific DNA binding site [nucleotide binding]; other site 499229007136 Domain of unknown function (DUF955); Region: DUF955; cl01076 499229007137 S-layer homology domain; Region: SLH; pfam00395 499229007138 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 499229007139 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 499229007140 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 499229007141 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229007142 dimer interface [polypeptide binding]; other site 499229007143 putative CheW interface [polypeptide binding]; other site 499229007144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229007145 CTP synthetase; Validated; Region: pyrG; PRK05380 499229007146 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 499229007147 Catalytic site [active] 499229007148 active site 499229007149 UTP binding site [chemical binding]; other site 499229007150 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 499229007151 active site 499229007152 putative oxyanion hole; other site 499229007153 catalytic triad [active] 499229007154 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 499229007155 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 499229007156 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 499229007157 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 499229007158 active site 499229007159 HIGH motif; other site 499229007160 KMSK motif region; other site 499229007161 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 499229007162 tRNA binding surface [nucleotide binding]; other site 499229007163 anticodon binding site; other site 499229007164 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 499229007165 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 499229007166 active site 499229007167 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 499229007168 active site 499229007169 dimer interface [polypeptide binding]; other site 499229007170 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 499229007171 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 499229007172 heterodimer interface [polypeptide binding]; other site 499229007173 active site 499229007174 FMN binding site [chemical binding]; other site 499229007175 homodimer interface [polypeptide binding]; other site 499229007176 substrate binding site [chemical binding]; other site 499229007177 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 499229007178 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 499229007179 FAD binding pocket [chemical binding]; other site 499229007180 FAD binding motif [chemical binding]; other site 499229007181 phosphate binding motif [ion binding]; other site 499229007182 beta-alpha-beta structure motif; other site 499229007183 NAD binding pocket [chemical binding]; other site 499229007184 Iron coordination center [ion binding]; other site 499229007185 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 499229007186 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 499229007187 ATP-grasp domain; Region: ATP-grasp_4; cl03087 499229007188 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 499229007189 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 499229007190 ATP-grasp domain; Region: ATP-grasp_4; cl03087 499229007191 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 499229007192 IMP binding site; other site 499229007193 dimer interface [polypeptide binding]; other site 499229007194 interdomain contacts; other site 499229007195 partial ornithine binding site; other site 499229007196 dihydroorotase; Validated; Region: pyrC; PRK09357 499229007197 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 499229007198 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 499229007199 active site 499229007200 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 499229007201 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 499229007202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229007203 prephenate dehydratase; Provisional; Region: PRK11898 499229007204 Prephenate dehydratase; Region: PDT; pfam00800 499229007205 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 499229007206 putative L-Phe binding site [chemical binding]; other site 499229007207 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 499229007208 NeuB family; Region: NeuB; cl00496 499229007209 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 499229007210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229007211 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 499229007212 active site 499229007213 dimer interface [polypeptide binding]; other site 499229007214 metal binding site [ion binding]; metal-binding site 499229007215 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 499229007216 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 499229007217 hinge; other site 499229007218 active site 499229007219 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 499229007220 Tetramer interface [polypeptide binding]; other site 499229007221 active site 499229007222 FMN-binding site [chemical binding]; other site 499229007223 Chorismate mutase type II; Region: CM_2; cl00693 499229007224 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 499229007225 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 499229007226 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 499229007227 shikimate binding site; other site 499229007228 NAD(P) binding site [chemical binding]; other site 499229007229 shikimate kinase; Reviewed; Region: aroK; PRK00131 499229007230 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 499229007231 ADP binding site [chemical binding]; other site 499229007232 magnesium binding site [ion binding]; other site 499229007233 putative shikimate binding site; other site 499229007234 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 499229007235 trimer interface [polypeptide binding]; other site 499229007236 active site 499229007237 dimer interface [polypeptide binding]; other site 499229007238 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 499229007239 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 499229007240 PQQ-like domain; Region: PQQ_2; pfam13360 499229007241 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 499229007242 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 499229007243 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 499229007244 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 499229007245 homodimer interface [polypeptide binding]; other site 499229007246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229007247 catalytic residue [active] 499229007248 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 499229007249 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 499229007250 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 499229007251 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 499229007252 FeS/SAM binding site; other site 499229007253 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 499229007254 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 499229007255 dimerization interface [polypeptide binding]; other site 499229007256 putative DNA binding site [nucleotide binding]; other site 499229007257 putative Zn2+ binding site [ion binding]; other site 499229007258 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 499229007259 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 499229007260 S-layer homology domain; Region: SLH; pfam00395 499229007261 S-layer homology domain; Region: SLH; pfam00395 499229007262 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 499229007263 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 499229007264 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 499229007265 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 499229007266 Chromate transporter; Region: Chromate_transp; pfam02417 499229007267 Chromate transporter; Region: Chromate_transp; pfam02417 499229007268 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 499229007269 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 499229007270 Glutaminase; Region: Glutaminase; cl00907 499229007271 Chromate transporter; Region: Chromate_transp; pfam02417 499229007272 Chromate transporter; Region: Chromate_transp; pfam02417 499229007273 Transposase; Region: DEDD_Tnp_IS110; pfam01548 499229007274 Heat shock factor binding protein 1; Region: HSBP1; pfam06825 499229007275 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 499229007276 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 499229007277 MatE; Region: MatE; cl10513 499229007278 MatE; Region: MatE; cl10513 499229007279 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 499229007280 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 499229007281 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 499229007282 DNA topoisomerase III; Provisional; Region: PRK07726 499229007283 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 499229007284 active site 499229007285 putative interdomain interaction site [polypeptide binding]; other site 499229007286 putative metal-binding site [ion binding]; other site 499229007287 putative nucleotide binding site [chemical binding]; other site 499229007288 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 499229007289 domain I; other site 499229007290 DNA binding groove [nucleotide binding] 499229007291 phosphate binding site [ion binding]; other site 499229007292 domain II; other site 499229007293 domain III; other site 499229007294 nucleotide binding site [chemical binding]; other site 499229007295 catalytic site [active] 499229007296 domain IV; other site 499229007297 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 499229007298 Predicted permease; Region: DUF318; pfam03773 499229007299 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 499229007300 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 499229007301 ATP binding site [chemical binding]; other site 499229007302 putative Mg++ binding site [ion binding]; other site 499229007303 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 499229007304 nucleotide binding region [chemical binding]; other site 499229007305 ATP-binding site [chemical binding]; other site 499229007306 RQC domain; Region: RQC; cl09632 499229007307 HRDC domain; Region: HRDC; cl02578 499229007308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 499229007309 Helix-turn-helix domains; Region: HTH; cl00088 499229007310 DNA binding residues [nucleotide binding] 499229007311 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 499229007312 catalytic loop [active] 499229007313 iron binding site [ion binding]; other site 499229007314 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 499229007315 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 499229007316 4Fe-4S binding domain; Region: Fer4; cl02805 499229007317 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 499229007318 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 499229007319 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 499229007320 putative dimer interface [polypeptide binding]; other site 499229007321 [2Fe-2S] cluster binding site [ion binding]; other site 499229007322 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 499229007323 dimer interface [polypeptide binding]; other site 499229007324 [2Fe-2S] cluster binding site [ion binding]; other site 499229007325 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 499229007326 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 499229007327 SLBB domain; Region: SLBB; pfam10531 499229007328 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 499229007329 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 499229007330 4Fe-4S binding domain; Region: Fer4; cl02805 499229007331 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 499229007332 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 499229007333 putative dimer interface [polypeptide binding]; other site 499229007334 [2Fe-2S] cluster binding site [ion binding]; other site 499229007335 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229007336 putative peptidoglycan binding site; other site 499229007337 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229007338 putative peptidoglycan binding site; other site 499229007339 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 499229007340 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 499229007341 active site 499229007342 metal binding site [ion binding]; metal-binding site 499229007343 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 499229007344 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 499229007345 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 499229007346 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 499229007347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229007348 Walker A/P-loop; other site 499229007349 ATP binding site [chemical binding]; other site 499229007350 Q-loop/lid; other site 499229007351 ABC transporter signature motif; other site 499229007352 Walker B; other site 499229007353 D-loop; other site 499229007354 H-loop/switch region; other site 499229007355 ABC-2 type transporter; Region: ABC2_membrane; cl11417 499229007356 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 499229007357 Sporulation related domain; Region: SPOR; cl10051 499229007358 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 499229007359 N-glycosyltransferase; Provisional; Region: PRK11204 499229007360 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 499229007361 DXD motif; other site 499229007362 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 499229007363 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 499229007364 NodB motif; other site 499229007365 putative active site [active] 499229007366 putative catalytic site [active] 499229007367 putative Zn binding site [ion binding]; other site 499229007368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 499229007369 metal binding site [ion binding]; metal-binding site 499229007370 active site 499229007371 I-site; other site 499229007372 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 499229007373 Dehydratase family; Region: ILVD_EDD; cl00340 499229007374 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 499229007375 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 499229007376 putative valine binding site [chemical binding]; other site 499229007377 dimer interface [polypeptide binding]; other site 499229007378 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 499229007379 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 499229007380 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 499229007381 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 499229007382 Chemotaxis phosphatase CheX; Region: CheX; cl15816 499229007383 Response regulator receiver domain; Region: Response_reg; pfam00072 499229007384 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 499229007385 active site 499229007386 phosphorylation site [posttranslational modification] 499229007387 intermolecular recognition site; other site 499229007388 dimerization interface [polypeptide binding]; other site 499229007389 Chemotaxis phosphatase CheX; Region: CheX; cl15816 499229007390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 499229007391 Response regulator receiver domain; Region: Response_reg; pfam00072 499229007392 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 499229007393 active site 499229007394 phosphorylation site [posttranslational modification] 499229007395 intermolecular recognition site; other site 499229007396 dimerization interface [polypeptide binding]; other site 499229007397 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 499229007398 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 499229007399 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 499229007400 active site 499229007401 phosphorylation site [posttranslational modification] 499229007402 intermolecular recognition site; other site 499229007403 dimerization interface [polypeptide binding]; other site 499229007404 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 499229007405 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 499229007406 active site 499229007407 multimer interface [polypeptide binding]; other site 499229007408 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 499229007409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229007410 DNA-binding site [nucleotide binding]; DNA binding site 499229007411 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 499229007412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 499229007413 homodimer interface [polypeptide binding]; other site 499229007414 catalytic residue [active] 499229007415 Transcriptional regulators [Transcription]; Region: GntR; COG1802 499229007416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 499229007417 DNA-binding site [nucleotide binding]; DNA binding site 499229007418 FCD domain; Region: FCD; cl11656 499229007419 Cache domain; Region: Cache_1; pfam02743 499229007420 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 499229007421 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 499229007422 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229007423 dimer interface [polypeptide binding]; other site 499229007424 putative CheW interface [polypeptide binding]; other site 499229007425 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 499229007426 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 499229007427 putative active site [active] 499229007428 heme pocket [chemical binding]; other site 499229007429 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 499229007430 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 499229007431 putative active site [active] 499229007432 heme pocket [chemical binding]; other site 499229007433 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229007434 dimer interface [polypeptide binding]; other site 499229007435 phosphorylation site [posttranslational modification] 499229007436 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 499229007437 ATP binding site [chemical binding]; other site 499229007438 G-X-G motif; other site 499229007439 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 499229007440 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 499229007441 active site 499229007442 phosphorylation site [posttranslational modification] 499229007443 intermolecular recognition site; other site 499229007444 dimerization interface [polypeptide binding]; other site 499229007445 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 499229007446 Zn2+ binding site [ion binding]; other site 499229007447 Mg2+ binding site [ion binding]; other site 499229007448 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 499229007449 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229007450 Walker A motif; other site 499229007451 ATP binding site [chemical binding]; other site 499229007452 Walker B motif; other site 499229007453 arginine finger; other site 499229007454 PRD domain; Region: PRD; cl15445 499229007455 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229007456 active pocket/dimerization site; other site 499229007457 active site 499229007458 phosphorylation site [posttranslational modification] 499229007459 PRD domain; Region: PRD; cl15445 499229007460 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 499229007461 active pocket/dimerization site; other site 499229007462 active site 499229007463 phosphorylation site [posttranslational modification] 499229007464 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 499229007465 active site 499229007466 phosphorylation site [posttranslational modification] 499229007467 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 499229007468 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 499229007469 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 499229007470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229007471 NAD(P) binding site [chemical binding]; other site 499229007472 hypothetical protein; Provisional; Region: PRK08185 499229007473 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 499229007474 intersubunit interface [polypeptide binding]; other site 499229007475 active site 499229007476 zinc binding site [ion binding]; other site 499229007477 Na+ binding site [ion binding]; other site 499229007478 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 499229007479 EamA-like transporter family; Region: EamA; cl01037 499229007480 EamA-like transporter family; Region: EamA; cl01037 499229007481 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 499229007482 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229007483 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 499229007484 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 499229007485 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 499229007486 dimer interface [polypeptide binding]; other site 499229007487 active site 499229007488 catalytic residue [active] 499229007489 MMPL family; Region: MMPL; pfam03176 499229007490 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 499229007491 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 499229007492 dimer interface [polypeptide binding]; other site 499229007493 putative CheW interface [polypeptide binding]; other site 499229007494 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 499229007495 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 499229007496 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 499229007497 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 499229007498 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 499229007499 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 499229007500 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 499229007501 Walker A motif; other site 499229007502 ATP binding site [chemical binding]; other site 499229007503 Walker B motif; other site 499229007504 arginine finger; other site 499229007505 Helix-turn-helix domains; Region: HTH; cl00088 499229007506 NAD-dependent deacetylase; Provisional; Region: PRK00481 499229007507 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 499229007508 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 499229007509 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 499229007510 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 499229007511 minor groove reading motif; other site 499229007512 helix-hairpin-helix signature motif; other site 499229007513 substrate binding pocket [chemical binding]; other site 499229007514 active site 499229007515 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 499229007516 Flavin Reductases; Region: FlaRed; cl00801 499229007517 spermidine synthase; Provisional; Region: PRK00811 499229007518 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 499229007519 S-adenosylmethionine binding site [chemical binding]; other site 499229007520 Nitrogen regulatory protein P-II; Region: P-II; smart00938 499229007521 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 499229007522 Bacterial Ig-like domain; Region: Big_5; cl01012 499229007523 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 499229007524 MG2 domain; Region: A2M_N; pfam01835 499229007525 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 499229007526 Alpha-2-macroglobulin family; Region: A2M; pfam00207 499229007527 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 499229007528 putative ligand binding pocket/active site [active] 499229007529 putative metal binding site [ion binding]; other site 499229007530 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 499229007531 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 499229007532 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 499229007533 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 499229007534 putative active site [active] 499229007535 putative metal binding site [ion binding]; other site 499229007536 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 499229007537 active site 499229007538 DNA binding site [nucleotide binding] 499229007539 putative phosphate binding site [ion binding]; other site 499229007540 putative catalytic site [active] 499229007541 metal binding site A [ion binding]; metal-binding site 499229007542 AP binding site [nucleotide binding]; other site 499229007543 metal binding site B [ion binding]; metal-binding site 499229007544 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 499229007545 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 499229007546 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 499229007547 putative inner membrane protein; Provisional; Region: PRK11099 499229007548 Sulphur transport; Region: Sulf_transp; cl01018 499229007549 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 499229007550 CPxP motif; other site 499229007551 putative inner membrane protein; Provisional; Region: PRK11099 499229007552 Sulphur transport; Region: Sulf_transp; cl01018 499229007553 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 499229007554 Helix-turn-helix domains; Region: HTH; cl00088 499229007555 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 499229007556 putative dimerization interface [polypeptide binding]; other site 499229007557 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 499229007558 CPxP motif; other site 499229007559 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 499229007560 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 499229007561 P-loop; other site 499229007562 active site 499229007563 phosphorylation site [posttranslational modification] 499229007564 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 499229007565 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 499229007566 active site 499229007567 phosphorylation site [posttranslational modification] 499229007568 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 499229007569 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 499229007570 putative substrate binding site [chemical binding]; other site 499229007571 putative ATP binding site [chemical binding]; other site 499229007572 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 499229007573 Helix-turn-helix domains; Region: HTH; cl00088 499229007574 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 499229007575 hybrid cluster protein; Provisional; Region: PRK05290 499229007576 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 499229007577 ACS interaction site; other site 499229007578 CODH interaction site; other site 499229007579 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 499229007580 hybrid metal cluster; other site 499229007581 Cupin domain; Region: Cupin_2; cl09118 499229007582 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 499229007583 4Fe-4S binding domain; Region: Fer4; cl02805 499229007584 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 499229007585 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 499229007586 ligand binding site [chemical binding]; other site 499229007587 Helix-turn-helix domains; Region: HTH; cl00088 499229007588 Fic family protein [Function unknown]; Region: COG3177 499229007589 Fic/DOC family; Region: Fic; cl00960 499229007590 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 499229007591 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 499229007592 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 499229007593 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 499229007594 AzlC protein; Region: AzlC; cl00570 499229007595 Bacteriophage holin; Region: Phage_holin_1; cl02344 499229007596 Domain of unknown function DUF39; Region: DUF39; cl14897 499229007597 ApbE family; Region: ApbE; cl00643 499229007598 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 499229007599 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 499229007600 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 499229007601 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 499229007602 substrate binding pocket [chemical binding]; other site 499229007603 dimer interface [polypeptide binding]; other site 499229007604 inhibitor binding site; inhibition site 499229007605 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 499229007606 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 499229007607 B12 binding site [chemical binding]; other site 499229007608 cobalt ligand [ion binding]; other site 499229007609 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 499229007610 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. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 499229007611 Walker A/P-loop; other site 499229007612 ATP binding site [chemical binding]; other site 499229007613 Q-loop/lid; other site 499229007614 ABC transporter signature motif; other site 499229007615 Walker B; other site 499229007616 D-loop; other site 499229007617 H-loop/switch region; other site 499229007618 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 499229007619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 499229007620 dimer interface [polypeptide binding]; other site 499229007621 conserved gate region; other site 499229007622 putative PBP binding loops; other site 499229007623 ABC-ATPase subunit interface; other site 499229007624 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 499229007625 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 499229007626 substrate binding pocket [chemical binding]; other site 499229007627 membrane-bound complex binding site; other site 499229007628 hinge residues; other site 499229007629 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 499229007630 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 499229007631 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 499229007632 protein binding site [polypeptide binding]; other site 499229007633 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 499229007634 4Fe-4S binding domain; Region: Fer4; cl02805 499229007635 4Fe-4S binding domain; Region: Fer4; cl02805 499229007636 YycH protein; Region: YycI; cl02015 499229007637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 499229007638 YycH protein; Region: YycH; pfam07435 499229007639 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 499229007640 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 499229007641 dimerization interface [polypeptide binding]; other site 499229007642 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 499229007643 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 499229007644 dimer interface [polypeptide binding]; other site 499229007645 phosphorylation site [posttranslational modification] 499229007646 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 499229007647 ATP binding site [chemical binding]; other site 499229007648 Mg2+ binding site [ion binding]; other site 499229007649 G-X-G motif; other site 499229007650 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 499229007651 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 499229007652 active site 499229007653 phosphorylation site [posttranslational modification] 499229007654 intermolecular recognition site; other site 499229007655 dimerization interface [polypeptide binding]; other site 499229007656 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 499229007657 DNA binding site [nucleotide binding] 499229007658 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 499229007659 Predicted GTPase [General function prediction only]; Region: COG2403 499229007660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 499229007661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 499229007662 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 499229007663 putative peptidoglycan binding site; other site 499229007664 G5 domain; Region: G5; pfam07501 499229007665 Peptidase family M23; Region: Peptidase_M23; pfam01551 499229007666 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 499229007667 Zn binding site [ion binding]; other site 499229007668 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 499229007669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229007670 replicative DNA helicase; Region: DnaB; TIGR00665 499229007671 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 499229007672 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 499229007673 Walker A motif; other site 499229007674 ATP binding site [chemical binding]; other site 499229007675 Walker B motif; other site 499229007676 DNA binding loops [nucleotide binding] 499229007677 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 499229007678 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 499229007679 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 499229007680 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 499229007681 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 499229007682 DHH family; Region: DHH; pfam01368 499229007683 DHHA1 domain; Region: DHHA1; pfam02272 499229007684 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 499229007685 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 499229007686 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 499229007687 dimer interface [polypeptide binding]; other site 499229007688 ssDNA binding site [nucleotide binding]; other site 499229007689 tetramer (dimer of dimers) interface [polypeptide binding]; other site 499229007690 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 499229007691 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 499229007692 mechanosensitive channel MscS; Provisional; Region: PRK10334 499229007693 Mechanosensitive ion channel; Region: MS_channel; pfam00924 499229007694 Colicin V production protein; Region: Colicin_V; cl00567 499229007695 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 499229007696 binding surface 499229007697 TPR motif; other site 499229007698 TPR repeat; Region: TPR_11; pfam13414 499229007699 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 499229007700 Uncharacterized membrane protein [Function unknown]; Region: COG3949 499229007701 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 499229007702 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 499229007703 IncA protein; Region: IncA; pfam04156 499229007704 Peptidase family M23; Region: Peptidase_M23; pfam01551 499229007705 Protein of unknown function (DUF554); Region: DUF554; cl00784 499229007706 Transposase IS200 like; Region: Y1_Tnp; cl00848 499229007707 ParB-like partition proteins; Region: parB_part; TIGR00180 499229007708 ParB-like nuclease domain; Region: ParBc; cl02129 499229007709 polyribonucleotide nucleotidyltransferase; Region: polynuc_phos; TIGR03591 499229007710 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 499229007711 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 499229007712 P-loop; other site 499229007713 Magnesium ion binding site [ion binding]; other site 499229007714 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 499229007715 Magnesium ion binding site [ion binding]; other site 499229007716 ParB-like partition proteins; Region: parB_part; TIGR00180 499229007717 ParB-like nuclease domain; Region: ParBc; cl02129 499229007718 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; cl15754 499229007719 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 499229007720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 499229007721 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 499229007722 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 499229007723 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 499229007724 trmE is a tRNA modification GTPase; Region: trmE; cd04164 499229007725 G1 box; other site 499229007726 GTP/Mg2+ binding site [chemical binding]; other site 499229007727 Switch I region; other site 499229007728 G2 box; other site 499229007729 Switch II region; other site 499229007730 G3 box; other site 499229007731 G4 box; other site 499229007732 G5 box; other site 499229007733 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 499229007734 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 499229007735 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 499229007736 G-X-X-G motif; other site 499229007737 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 499229007738 RxxxH motif; other site 499229007739 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 499229007740 Haemolytic domain; Region: Haemolytic; cl00506 499229007741 Ribonuclease P; Region: Ribonuclease_P; cl00457 499229007742 Ribosomal protein L34; Region: Ribosomal_L34; cl00370