-- dump date 20140619_045132 -- class Genbank::misc_feature -- table misc_feature_note -- id note 610130000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 610130000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 610130000003 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 610130000004 Walker A motif; other site 610130000005 ATP binding site [chemical binding]; other site 610130000006 Walker B motif; other site 610130000007 arginine finger; other site 610130000008 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 610130000009 DnaA box-binding interface [nucleotide binding]; other site 610130000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 610130000011 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 610130000012 putative DNA binding surface [nucleotide binding]; other site 610130000013 dimer interface [polypeptide binding]; other site 610130000014 beta-clamp/clamp loader binding surface; other site 610130000015 beta-clamp/translesion DNA polymerase binding surface; other site 610130000016 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 610130000017 RNA binding surface [nucleotide binding]; other site 610130000018 recombination protein F; Reviewed; Region: recF; PRK00064 610130000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 610130000020 Walker A/P-loop; other site 610130000021 ATP binding site [chemical binding]; other site 610130000022 Q-loop/lid; other site 610130000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130000024 ABC transporter signature motif; other site 610130000025 Walker B; other site 610130000026 D-loop; other site 610130000027 H-loop/switch region; other site 610130000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 610130000029 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 610130000030 Mg2+ binding site [ion binding]; other site 610130000031 G-X-G motif; other site 610130000032 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 610130000033 anchoring element; other site 610130000034 dimer interface [polypeptide binding]; other site 610130000035 ATP binding site [chemical binding]; other site 610130000036 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 610130000037 active site 610130000038 putative metal-binding site [ion binding]; other site 610130000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 610130000040 DNA gyrase subunit A; Validated; Region: PRK05560 610130000041 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 610130000042 CAP-like domain; other site 610130000043 active site 610130000044 primary dimer interface [polypeptide binding]; other site 610130000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 610130000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 610130000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 610130000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 610130000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 610130000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 610130000051 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130000052 HTH domain; Region: HTH_11; pfam08279 610130000053 Mga helix-turn-helix domain; Region: Mga; pfam05043 610130000054 PRD domain; Region: PRD; pfam00874 610130000055 PRD domain; Region: PRD; pfam00874 610130000056 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 610130000057 active site 610130000058 phosphorylation site [posttranslational modification] 610130000059 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 610130000060 active site 610130000061 P-loop; other site 610130000062 phosphorylation site [posttranslational modification] 610130000063 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 610130000064 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 610130000065 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 610130000066 active site 610130000067 methionine cluster; other site 610130000068 phosphorylation site [posttranslational modification] 610130000069 metal binding site [ion binding]; metal-binding site 610130000070 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 610130000071 beta-galactosidase; Region: BGL; TIGR03356 610130000072 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 610130000073 dimerization domain swap beta strand [polypeptide binding]; other site 610130000074 regulatory protein interface [polypeptide binding]; other site 610130000075 active site 610130000076 regulatory phosphorylation site [posttranslational modification]; other site 610130000077 Predicted transcriptional regulator [Transcription]; Region: COG1959 610130000078 Transcriptional regulator; Region: Rrf2; pfam02082 610130000079 Transcriptional regulator; Region: Rrf2; cl17282 610130000080 fumarate hydratase; Provisional; Region: PRK06246 610130000081 Fumarase C-terminus; Region: Fumerase_C; cl00795 610130000082 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 610130000083 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 610130000084 putative acyl-acceptor binding pocket; other site 610130000085 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 610130000086 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 610130000087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130000088 catalytic residue [active] 610130000089 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 610130000090 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 610130000091 active site 610130000092 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130000093 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 610130000094 TM-ABC transporter signature motif; other site 610130000095 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130000096 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130000097 Walker A/P-loop; other site 610130000098 ATP binding site [chemical binding]; other site 610130000099 Q-loop/lid; other site 610130000100 ABC transporter signature motif; other site 610130000101 Walker B; other site 610130000102 D-loop; other site 610130000103 H-loop/switch region; other site 610130000104 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130000105 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 610130000106 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 610130000107 putative ligand binding site [chemical binding]; other site 610130000108 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 610130000109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130000110 Walker A/P-loop; other site 610130000111 ATP binding site [chemical binding]; other site 610130000112 Q-loop/lid; other site 610130000113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130000114 Q-loop/lid; other site 610130000115 ABC transporter signature motif; other site 610130000116 ABC transporter signature motif; other site 610130000117 D-loop; other site 610130000118 H-loop/switch region; other site 610130000119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130000120 Q-loop/lid; other site 610130000121 ABC transporter signature motif; other site 610130000122 Walker B; other site 610130000123 D-loop; other site 610130000124 H-loop/switch region; other site 610130000125 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130000126 Histidine kinase; Region: His_kinase; pfam06580 610130000127 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 610130000128 ATP binding site [chemical binding]; other site 610130000129 Mg2+ binding site [ion binding]; other site 610130000130 G-X-G motif; other site 610130000131 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130000132 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 610130000133 active site 610130000134 phosphorylation site [posttranslational modification] 610130000135 intermolecular recognition site; other site 610130000136 dimerization interface [polypeptide binding]; other site 610130000137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000139 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 610130000140 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 610130000141 Walker A motif; other site 610130000142 ATP binding site [chemical binding]; other site 610130000143 Walker B motif; other site 610130000144 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 610130000145 arginine finger; other site 610130000146 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 610130000147 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 610130000148 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 610130000149 Predicted methyltransferases [General function prediction only]; Region: COG0313 610130000150 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 610130000151 putative SAM binding site [chemical binding]; other site 610130000152 putative homodimer interface [polypeptide binding]; other site 610130000153 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 610130000154 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 610130000155 dimer interface [polypeptide binding]; other site 610130000156 active site 610130000157 CoA binding pocket [chemical binding]; other site 610130000158 acyl carrier protein; Provisional; Region: acpP; PRK00982 610130000159 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 610130000160 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 610130000161 FMN binding site [chemical binding]; other site 610130000162 substrate binding site [chemical binding]; other site 610130000163 putative catalytic residue [active] 610130000164 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 610130000165 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 610130000166 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 610130000167 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 610130000168 homotetramer interface [polypeptide binding]; other site 610130000169 NAD(P) binding site [chemical binding]; other site 610130000170 homodimer interface [polypeptide binding]; other site 610130000171 active site 610130000172 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 610130000173 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 610130000174 dimer interface [polypeptide binding]; other site 610130000175 active site 610130000176 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 610130000177 Viral methyltransferase C-terminal; Region: Vmethyltransf_C; pfam08456 610130000178 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 610130000179 carboxyltransferase (CT) interaction site; other site 610130000180 biotinylation site [posttranslational modification]; other site 610130000181 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 610130000182 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 610130000183 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 610130000184 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 610130000185 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 610130000186 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 610130000187 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 610130000188 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 610130000189 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 610130000190 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 610130000191 FMN binding site [chemical binding]; other site 610130000192 substrate binding site [chemical binding]; other site 610130000193 putative catalytic residue [active] 610130000194 uracil transporter; Provisional; Region: PRK10720 610130000195 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 610130000196 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 610130000197 nucleoside/Zn binding site; other site 610130000198 dimer interface [polypeptide binding]; other site 610130000199 catalytic motif [active] 610130000200 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 610130000201 Na binding site [ion binding]; other site 610130000202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130000203 DNA-binding site [nucleotide binding]; DNA binding site 610130000204 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130000205 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 610130000206 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 610130000207 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130000208 DNA-binding site [nucleotide binding]; DNA binding site 610130000209 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 610130000210 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130000211 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130000212 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 610130000213 dimer interface [polypeptide binding]; other site 610130000214 conserved gate region; other site 610130000215 putative PBP binding loops; other site 610130000216 ABC-ATPase subunit interface; other site 610130000217 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130000218 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 610130000219 dimer interface [polypeptide binding]; other site 610130000220 conserved gate region; other site 610130000221 putative PBP binding loops; other site 610130000222 ABC-ATPase subunit interface; other site 610130000223 transketolase; Reviewed; Region: PRK05899 610130000224 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 610130000225 TPP-binding site [chemical binding]; other site 610130000226 dimer interface [polypeptide binding]; other site 610130000227 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 610130000228 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 610130000229 PYR/PP interface [polypeptide binding]; other site 610130000230 dimer interface [polypeptide binding]; other site 610130000231 TPP binding site [chemical binding]; other site 610130000232 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 610130000233 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 610130000234 TSCPD domain; Region: TSCPD; cl14834 610130000235 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 610130000236 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 610130000237 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 610130000238 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 610130000239 active site 610130000240 dimer interface [polypeptide binding]; other site 610130000241 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 610130000242 dimer interface [polypeptide binding]; other site 610130000243 active site 610130000244 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130000245 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130000246 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 610130000247 dimer interface [polypeptide binding]; other site 610130000248 conserved gate region; other site 610130000249 putative PBP binding loops; other site 610130000250 ABC-ATPase subunit interface; other site 610130000251 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130000252 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 610130000253 dimer interface [polypeptide binding]; other site 610130000254 conserved gate region; other site 610130000255 putative PBP binding loops; other site 610130000256 ABC-ATPase subunit interface; other site 610130000257 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 610130000258 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 610130000259 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 610130000260 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 610130000261 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 610130000262 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 610130000263 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 610130000264 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 610130000265 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 610130000266 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 610130000267 EamA-like transporter family; Region: EamA; pfam00892 610130000268 EamA-like transporter family; Region: EamA; pfam00892 610130000269 beta-phosphoglucomutase; Region: bPGM; TIGR01990 610130000270 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 610130000271 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 610130000272 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130000273 DNA binding site [nucleotide binding] 610130000274 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 610130000275 putative ligand binding site [chemical binding]; other site 610130000276 putative dimerization interface [polypeptide binding]; other site 610130000277 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 610130000278 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130000279 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 610130000280 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 610130000281 TPP-binding site [chemical binding]; other site 610130000282 dimer interface [polypeptide binding]; other site 610130000283 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 610130000284 PYR/PP interface [polypeptide binding]; other site 610130000285 dimer interface [polypeptide binding]; other site 610130000286 TPP binding site [chemical binding]; other site 610130000287 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 610130000288 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 610130000289 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 610130000290 nucleotide binding site [chemical binding]; other site 610130000291 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 610130000292 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130000293 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 610130000294 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 610130000295 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 610130000296 Hemerythrin-like domain; Region: Hr-like; cd12108 610130000297 Hemerythrin-like domain; Region: Hr-like; cd12108 610130000298 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 610130000299 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 610130000300 ligand binding site [chemical binding]; other site 610130000301 flexible hinge region; other site 610130000302 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 610130000303 putative switch regulator; other site 610130000304 non-specific DNA interactions [nucleotide binding]; other site 610130000305 DNA binding site [nucleotide binding] 610130000306 sequence specific DNA binding site [nucleotide binding]; other site 610130000307 putative cAMP binding site [chemical binding]; other site 610130000308 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 610130000309 active site 610130000310 catalytic residues [active] 610130000311 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130000312 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130000313 Walker A/P-loop; other site 610130000314 ATP binding site [chemical binding]; other site 610130000315 Q-loop/lid; other site 610130000316 ABC transporter signature motif; other site 610130000317 Walker B; other site 610130000318 D-loop; other site 610130000319 H-loop/switch region; other site 610130000320 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130000321 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 610130000322 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130000323 TM-ABC transporter signature motif; other site 610130000324 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130000325 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130000326 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130000327 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130000328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000330 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 610130000331 TPR motif; other site 610130000332 binding surface 610130000333 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 610130000334 TPR repeat; Region: TPR_11; pfam13414 610130000335 TPR motif; other site 610130000336 binding surface 610130000337 Tetratricopeptide repeat; Region: TPR_12; pfam13424 610130000338 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 610130000339 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 610130000340 DRTGG domain; Region: DRTGG; pfam07085 610130000341 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 610130000342 DHH family; Region: DHH; pfam01368 610130000343 DHHA2 domain; Region: DHHA2; pfam02833 610130000344 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 610130000345 shikimate kinase; Reviewed; Region: aroK; PRK00131 610130000346 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 610130000347 ADP binding site [chemical binding]; other site 610130000348 magnesium binding site [ion binding]; other site 610130000349 putative shikimate binding site; other site 610130000350 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 610130000351 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 610130000352 dimerization interface [polypeptide binding]; other site 610130000353 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130000354 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130000355 dimer interface [polypeptide binding]; other site 610130000356 putative CheW interface [polypeptide binding]; other site 610130000357 Cache domain; Region: Cache_1; pfam02743 610130000358 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130000359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130000360 dimer interface [polypeptide binding]; other site 610130000361 putative CheW interface [polypeptide binding]; other site 610130000362 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 610130000363 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130000364 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 610130000365 active site turn [active] 610130000366 phosphorylation site [posttranslational modification] 610130000367 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 610130000368 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 610130000369 putative active site cavity [active] 610130000370 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130000371 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130000372 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 610130000373 putative active site [active] 610130000374 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 610130000375 Transcriptional regulator [Transcription]; Region: IclR; COG1414 610130000376 Bacterial transcriptional regulator; Region: IclR; pfam01614 610130000377 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130000378 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 610130000379 dimer interface [polypeptide binding]; other site 610130000380 conserved gate region; other site 610130000381 putative PBP binding loops; other site 610130000382 ABC-ATPase subunit interface; other site 610130000383 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130000384 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 610130000385 dimer interface [polypeptide binding]; other site 610130000386 conserved gate region; other site 610130000387 putative PBP binding loops; other site 610130000388 ABC-ATPase subunit interface; other site 610130000389 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 610130000390 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 610130000391 Walker A/P-loop; other site 610130000392 ATP binding site [chemical binding]; other site 610130000393 Q-loop/lid; other site 610130000394 ABC transporter signature motif; other site 610130000395 Walker B; other site 610130000396 D-loop; other site 610130000397 H-loop/switch region; other site 610130000398 TOBE domain; Region: TOBE_2; pfam08402 610130000399 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 610130000400 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 610130000401 classical (c) SDRs; Region: SDR_c; cd05233 610130000402 NAD(P) binding site [chemical binding]; other site 610130000403 active site 610130000404 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 610130000405 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 610130000406 QueT transporter; Region: QueT; pfam06177 610130000407 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 610130000408 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 610130000409 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 610130000410 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 610130000411 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 610130000412 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 610130000413 DNA replication protein DnaC; Validated; Region: PRK06835 610130000414 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 610130000415 Walker A motif; other site 610130000416 ATP binding site [chemical binding]; other site 610130000417 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130000418 active site 610130000419 catalytic triad [active] 610130000420 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 610130000421 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 610130000422 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130000423 active site 610130000424 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 610130000425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130000426 AAA domain; Region: AAA_23; pfam13476 610130000427 Walker A/P-loop; other site 610130000428 ATP binding site [chemical binding]; other site 610130000429 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 610130000430 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130000431 active site 610130000432 metal binding site [ion binding]; metal-binding site 610130000433 DNA binding site [nucleotide binding] 610130000434 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 610130000435 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 610130000436 putative dimer interface [polypeptide binding]; other site 610130000437 putative anticodon binding site; other site 610130000438 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 610130000439 homodimer interface [polypeptide binding]; other site 610130000440 motif 1; other site 610130000441 motif 2; other site 610130000442 active site 610130000443 motif 3; other site 610130000444 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 610130000445 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 610130000446 ligand binding site; other site 610130000447 oligomer interface; other site 610130000448 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 610130000449 N-terminal domain interface [polypeptide binding]; other site 610130000450 sulfate 1 binding site; other site 610130000451 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 610130000452 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 610130000453 ligand binding site; other site 610130000454 oligomer interface; other site 610130000455 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 610130000456 dimer interface [polypeptide binding]; other site 610130000457 N-terminal domain interface [polypeptide binding]; other site 610130000458 sulfate 1 binding site; other site 610130000459 regulatory protein SpoVG; Reviewed; Region: PRK13259 610130000460 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 610130000461 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 610130000462 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 610130000463 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 610130000464 active site 610130000465 substrate binding site [chemical binding]; other site 610130000466 ATP binding site [chemical binding]; other site 610130000467 glycogen branching enzyme; Provisional; Region: PRK12313 610130000468 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 610130000469 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 610130000470 active site 610130000471 catalytic site [active] 610130000472 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 610130000473 trehalose synthase; Region: treS_nterm; TIGR02456 610130000474 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 610130000475 active site 610130000476 catalytic site [active] 610130000477 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 610130000478 dimerization interface [polypeptide binding]; other site 610130000479 putative DNA binding site [nucleotide binding]; other site 610130000480 putative Zn2+ binding site [ion binding]; other site 610130000481 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 610130000482 AAA domain; Region: AAA_31; pfam13614 610130000483 Type II/IV secretion system protein; Region: T2SE; pfam00437 610130000484 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 610130000485 ATP binding site [chemical binding]; other site 610130000486 Walker A motif; other site 610130000487 hexamer interface [polypeptide binding]; other site 610130000488 Walker B motif; other site 610130000489 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 610130000490 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 610130000491 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 610130000492 phosphopeptide binding site; other site 610130000493 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 610130000494 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 610130000495 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 610130000496 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 610130000497 ABC-ATPase subunit interface; other site 610130000498 dimer interface [polypeptide binding]; other site 610130000499 putative PBP binding regions; other site 610130000500 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 610130000501 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 610130000502 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 610130000503 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 610130000504 intersubunit interface [polypeptide binding]; other site 610130000505 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 610130000506 metal binding site 2 [ion binding]; metal-binding site 610130000507 putative DNA binding helix; other site 610130000508 metal binding site 1 [ion binding]; metal-binding site 610130000509 dimer interface [polypeptide binding]; other site 610130000510 structural Zn2+ binding site [ion binding]; other site 610130000511 Rhomboid family; Region: Rhomboid; pfam01694 610130000512 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 610130000513 HIT family signature motif; other site 610130000514 catalytic residue [active] 610130000515 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130000516 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130000517 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; cl17257 610130000518 DNA binding residues [nucleotide binding] 610130000519 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 610130000520 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 610130000521 active site 610130000522 homodimer interface [polypeptide binding]; other site 610130000523 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 610130000524 ArsC family; Region: ArsC; pfam03960 610130000525 putative ArsC-like catalytic residues; other site 610130000526 putative TRX-like catalytic residues [active] 610130000527 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 610130000528 MarR family; Region: MarR_2; pfam12802 610130000529 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130000530 MarR family; Region: MarR_2; cl17246 610130000531 Sporulation and spore germination; Region: Germane; cl11253 610130000532 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 610130000533 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 610130000534 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 610130000535 active site 610130000536 HIGH motif; other site 610130000537 KMSKS motif; other site 610130000538 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 610130000539 tRNA binding surface [nucleotide binding]; other site 610130000540 anticodon binding site; other site 610130000541 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 610130000542 dimer interface [polypeptide binding]; other site 610130000543 putative tRNA-binding site [nucleotide binding]; other site 610130000544 TraX protein; Region: TraX; pfam05857 610130000545 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 610130000546 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 610130000547 active site 610130000548 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 610130000549 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 610130000550 S-adenosylmethionine binding site [chemical binding]; other site 610130000551 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 610130000552 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130000553 myosin-cross-reactive antigen; Provisional; Region: PRK13977 610130000554 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 610130000555 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 610130000556 peptide binding site [polypeptide binding]; other site 610130000557 hypothetical protein; Provisional; Region: PRK13690 610130000558 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 610130000559 nucleotide binding site/active site [active] 610130000560 HIT family signature motif; other site 610130000561 catalytic residue [active] 610130000562 Hemerythrin; Region: Hemerythrin; cd12107 610130000563 Fe binding site [ion binding]; other site 610130000564 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 610130000565 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 610130000566 active site 610130000567 trimer interface [polypeptide binding]; other site 610130000568 allosteric site; other site 610130000569 active site lid [active] 610130000570 hexamer (dimer of trimers) interface [polypeptide binding]; other site 610130000571 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK13108 610130000572 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 610130000573 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 610130000574 FeS/SAM binding site; other site 610130000575 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 610130000576 nucleoside/Zn binding site; other site 610130000577 dimer interface [polypeptide binding]; other site 610130000578 catalytic motif [active] 610130000579 6-phosphofructokinase; Provisional; Region: PRK03202 610130000580 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 610130000581 active site 610130000582 ADP/pyrophosphate binding site [chemical binding]; other site 610130000583 dimerization interface [polypeptide binding]; other site 610130000584 allosteric effector site; other site 610130000585 fructose-1,6-bisphosphate binding site; other site 610130000586 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 610130000587 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 610130000588 Walker A motif; other site 610130000589 ATP binding site [chemical binding]; other site 610130000590 Walker B motif; other site 610130000591 arginine finger; other site 610130000592 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 610130000593 hypothetical protein; Validated; Region: PRK00153 610130000594 recombination protein RecR; Reviewed; Region: recR; PRK00076 610130000595 RecR protein; Region: RecR; pfam02132 610130000596 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 610130000597 putative active site [active] 610130000598 putative metal-binding site [ion binding]; other site 610130000599 tetramer interface [polypeptide binding]; other site 610130000600 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 610130000601 binding surface 610130000602 TPR motif; other site 610130000603 Tetratricopeptide repeat; Region: TPR_16; pfam13432 610130000604 AAA domain; Region: AAA_22; pfam13401 610130000605 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130000606 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 610130000607 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 610130000608 active site 610130000609 motif I; other site 610130000610 motif II; other site 610130000611 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 610130000612 Colicin V production protein; Region: Colicin_V; pfam02674 610130000613 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 610130000614 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 610130000615 active site 610130000616 Int/Topo IB signature motif; other site 610130000617 DNA binding site [nucleotide binding] 610130000618 Putative viral replication protein; Region: Viral_Rep; pfam02407 610130000619 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 610130000620 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130000621 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 610130000622 non-specific DNA binding site [nucleotide binding]; other site 610130000623 salt bridge; other site 610130000624 sequence-specific DNA binding site [nucleotide binding]; other site 610130000625 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130000626 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 610130000627 Double zinc ribbon; Region: DZR; pfam12773 610130000628 YARHG domain; Region: YARHG; pfam13308 610130000629 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130000630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130000631 Walker A/P-loop; other site 610130000632 ATP binding site [chemical binding]; other site 610130000633 RecT family; Region: RecT; cl04285 610130000634 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130000635 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130000636 DNA-binding site [nucleotide binding]; DNA binding site 610130000637 UTRA domain; Region: UTRA; pfam07702 610130000638 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 610130000639 active pocket/dimerization site; other site 610130000640 active site 610130000641 phosphorylation site [posttranslational modification] 610130000642 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; cd00001 610130000643 active site 610130000644 phosphorylation site [posttranslational modification] 610130000645 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 610130000646 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 610130000647 hypothetical protein; Provisional; Region: PRK02947 610130000648 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 610130000649 putative active site [active] 610130000650 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 610130000651 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 610130000652 active site 610130000653 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 610130000654 putative trimer interface [polypeptide binding]; other site 610130000655 putative CoA binding site [chemical binding]; other site 610130000656 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 610130000657 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 610130000658 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 610130000659 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 610130000660 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130000661 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 610130000662 putative Zn2+ binding site [ion binding]; other site 610130000663 putative DNA binding site [nucleotide binding]; other site 610130000664 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 610130000665 Predicted transcriptional regulators [Transcription]; Region: COG1695 610130000666 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 610130000667 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 610130000668 Int/Topo IB signature motif; other site 610130000669 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 610130000670 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 610130000671 dimerization interface [polypeptide binding]; other site 610130000672 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130000673 dimer interface [polypeptide binding]; other site 610130000674 putative CheW interface [polypeptide binding]; other site 610130000675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130000676 Zn2+ binding site [ion binding]; other site 610130000677 Mg2+ binding site [ion binding]; other site 610130000678 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 610130000679 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 610130000680 dimer interface [polypeptide binding]; other site 610130000681 active site 610130000682 metal binding site [ion binding]; metal-binding site 610130000683 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130000684 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130000685 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130000686 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 610130000687 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 610130000688 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 610130000689 dihydrodipicolinate synthase; Region: dapA; TIGR00674 610130000690 dimer interface [polypeptide binding]; other site 610130000691 active site 610130000692 catalytic residue [active] 610130000693 Cache domain; Region: Cache_1; pfam02743 610130000694 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 610130000695 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 610130000696 dimerization interface [polypeptide binding]; other site 610130000697 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130000698 dimer interface [polypeptide binding]; other site 610130000699 putative CheW interface [polypeptide binding]; other site 610130000700 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 610130000701 regulatory protein interface [polypeptide binding]; other site 610130000702 regulatory phosphorylation site [posttranslational modification]; other site 610130000703 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130000704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000705 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 610130000706 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 610130000707 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130000708 Coenzyme A binding pocket [chemical binding]; other site 610130000709 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 610130000710 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 610130000711 active site 610130000712 catalytic tetrad [active] 610130000713 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 610130000714 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 610130000715 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 610130000716 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 610130000717 dimer interface [polypeptide binding]; other site 610130000718 ssDNA binding site [nucleotide binding]; other site 610130000719 tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130000720 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 610130000721 Cache domain; Region: Cache_1; pfam02743 610130000722 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 610130000723 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 610130000724 dimerization interface [polypeptide binding]; other site 610130000725 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130000726 dimer interface [polypeptide binding]; other site 610130000727 putative CheW interface [polypeptide binding]; other site 610130000728 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 610130000729 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 610130000730 ligand binding site [chemical binding]; other site 610130000731 flexible hinge region; other site 610130000732 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 610130000733 non-specific DNA interactions [nucleotide binding]; other site 610130000734 DNA binding site [nucleotide binding] 610130000735 sequence specific DNA binding site [nucleotide binding]; other site 610130000736 putative cAMP binding site [chemical binding]; other site 610130000737 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 610130000738 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 610130000739 DNA binding residues [nucleotide binding] 610130000740 dimer interface [polypeptide binding]; other site 610130000741 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 610130000742 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130000743 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130000744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130000745 Walker A/P-loop; other site 610130000746 ATP binding site [chemical binding]; other site 610130000747 Q-loop/lid; other site 610130000748 ABC transporter signature motif; other site 610130000749 Walker B; other site 610130000750 D-loop; other site 610130000751 H-loop/switch region; other site 610130000752 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130000753 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130000754 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 610130000755 Walker A/P-loop; other site 610130000756 ATP binding site [chemical binding]; other site 610130000757 Q-loop/lid; other site 610130000758 ABC transporter signature motif; other site 610130000759 Walker B; other site 610130000760 D-loop; other site 610130000761 H-loop/switch region; other site 610130000762 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 610130000763 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 610130000764 Metal-binding active site; metal-binding site 610130000765 AP (apurinic/apyrimidinic) site pocket; other site 610130000766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130000767 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 610130000768 active site 610130000769 phosphorylation site [posttranslational modification] 610130000770 intermolecular recognition site; other site 610130000771 dimerization interface [polypeptide binding]; other site 610130000772 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 610130000773 DNA binding site [nucleotide binding] 610130000774 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130000775 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 610130000776 dimerization interface [polypeptide binding]; other site 610130000777 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 610130000778 dimer interface [polypeptide binding]; other site 610130000779 phosphorylation site [posttranslational modification] 610130000780 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 610130000781 ATP binding site [chemical binding]; other site 610130000782 Mg2+ binding site [ion binding]; other site 610130000783 G-X-G motif; other site 610130000784 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 610130000785 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 610130000786 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 610130000787 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130000788 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 610130000789 active site 610130000790 phosphorylation site [posttranslational modification] 610130000791 intermolecular recognition site; other site 610130000792 dimerization interface [polypeptide binding]; other site 610130000793 LytTr DNA-binding domain; Region: LytTR; smart00850 610130000794 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 610130000795 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 610130000796 Na binding site [ion binding]; other site 610130000797 Transcriptional regulators [Transcription]; Region: GntR; COG1802 610130000798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130000799 DNA-binding site [nucleotide binding]; DNA binding site 610130000800 FCD domain; Region: FCD; pfam07729 610130000801 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 610130000802 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 610130000803 tyrosine phenol-lyase; Provisional; Region: PRK13237 610130000804 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 610130000805 substrate binding site [chemical binding]; other site 610130000806 tetramer interface [polypeptide binding]; other site 610130000807 catalytic residue [active] 610130000808 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130000809 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 610130000810 active site 610130000811 phosphorylation site [posttranslational modification] 610130000812 intermolecular recognition site; other site 610130000813 dimerization interface [polypeptide binding]; other site 610130000814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130000817 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 610130000818 Histidine kinase; Region: His_kinase; pfam06580 610130000819 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 610130000820 ATP binding site [chemical binding]; other site 610130000821 Mg2+ binding site [ion binding]; other site 610130000822 G-X-G motif; other site 610130000823 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 610130000824 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130000825 putative ligand binding site [chemical binding]; other site 610130000826 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130000827 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130000828 Walker A/P-loop; other site 610130000829 ATP binding site [chemical binding]; other site 610130000830 Q-loop/lid; other site 610130000831 ABC transporter signature motif; other site 610130000832 Walker B; other site 610130000833 D-loop; other site 610130000834 H-loop/switch region; other site 610130000835 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130000836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130000837 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 610130000838 TM-ABC transporter signature motif; other site 610130000839 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130000840 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 610130000841 TM-ABC transporter signature motif; other site 610130000842 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130000843 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 610130000844 DNA topoisomerase III; Provisional; Region: PRK07726 610130000845 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 610130000846 active site 610130000847 putative interdomain interaction site [polypeptide binding]; other site 610130000848 putative metal-binding site [ion binding]; other site 610130000849 putative nucleotide binding site [chemical binding]; other site 610130000850 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 610130000851 domain I; other site 610130000852 DNA binding groove [nucleotide binding] 610130000853 phosphate binding site [ion binding]; other site 610130000854 domain II; other site 610130000855 domain III; other site 610130000856 nucleotide binding site [chemical binding]; other site 610130000857 catalytic site [active] 610130000858 domain IV; other site 610130000859 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 610130000860 MIZ/SP-RING zinc finger; Region: zf-MIZ; pfam02891 610130000861 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130000862 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130000863 DNA binding site [nucleotide binding] 610130000864 domain linker motif; other site 610130000865 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130000866 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 610130000867 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 610130000868 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 610130000869 Walker A/P-loop; other site 610130000870 ATP binding site [chemical binding]; other site 610130000871 Q-loop/lid; other site 610130000872 ABC transporter signature motif; other site 610130000873 Walker B; other site 610130000874 D-loop; other site 610130000875 H-loop/switch region; other site 610130000876 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 610130000877 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 610130000878 dimer interface [polypeptide binding]; other site 610130000879 conserved gate region; other site 610130000880 putative PBP binding loops; other site 610130000881 ABC-ATPase subunit interface; other site 610130000882 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 610130000883 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 610130000884 dimer interface [polypeptide binding]; other site 610130000885 conserved gate region; other site 610130000886 ABC-ATPase subunit interface; other site 610130000887 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130000888 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 610130000889 active site 610130000890 metal binding site [ion binding]; metal-binding site 610130000891 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 610130000892 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 610130000893 Carbon starvation protein CstA; Region: CstA; pfam02554 610130000894 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 610130000895 BclB C-terminal domain; Region: exospore_TM; TIGR03721 610130000896 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130000897 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; cl02788 610130000898 catalytic residues [active] 610130000899 catalytic nucleophile [active] 610130000900 Recombinase; Region: Recombinase; pfam07508 610130000901 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130000902 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130000903 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 610130000904 DNA binding residues [nucleotide binding] 610130000905 Cysteine-rich KTR; Region: Cys_rich_KTR; pfam14205 610130000906 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 610130000907 S-adenosylmethionine binding site [chemical binding]; other site 610130000908 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130000909 WHG domain; Region: WHG; pfam13305 610130000910 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 610130000911 classical (c) SDRs; Region: SDR_c; cd05233 610130000912 NAD(P) binding site [chemical binding]; other site 610130000913 active site 610130000914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130000915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130000916 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 610130000917 dimerization interface [polypeptide binding]; other site 610130000918 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 610130000919 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 610130000920 non-specific DNA binding site [nucleotide binding]; other site 610130000921 salt bridge; other site 610130000922 sequence-specific DNA binding site [nucleotide binding]; other site 610130000923 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 610130000924 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 610130000925 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 610130000926 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 610130000927 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 610130000928 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130000929 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130000930 AAA-like domain; Region: AAA_10; pfam12846 610130000931 Domain of unknown function DUF87; Region: DUF87; pfam01935 610130000932 PrgI family protein; Region: PrgI; pfam12666 610130000933 SpoVG; Region: SpoVG; pfam04026 610130000934 Maff2 family; Region: Maff2; pfam12750 610130000935 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 610130000936 ParB-like nuclease domain; Region: ParB; smart00470 610130000937 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 610130000938 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 610130000939 ATP binding site [chemical binding]; other site 610130000940 Mg2+ binding site [ion binding]; other site 610130000941 G-X-G motif; other site 610130000942 Response regulator receiver domain; Region: Response_reg; pfam00072 610130000943 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 610130000944 active site 610130000945 phosphorylation site [posttranslational modification] 610130000946 intermolecular recognition site; other site 610130000947 dimerization interface [polypeptide binding]; other site 610130000948 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 610130000949 DHH family; Region: DHH; pfam01368 610130000950 DHHA1 domain; Region: DHHA1; pfam02272 610130000951 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 610130000952 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 610130000953 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 610130000954 replicative DNA helicase; Region: DnaB; TIGR00665 610130000955 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 610130000956 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 610130000957 Walker A motif; other site 610130000958 ATP binding site [chemical binding]; other site 610130000959 Walker B motif; other site 610130000960 DNA binding loops [nucleotide binding] 610130000961 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130000962 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 610130000963 DNA binding residues [nucleotide binding] 610130000964 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 610130000965 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 610130000966 catalytic triad [active] 610130000967 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 610130000968 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130000969 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 610130000970 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 610130000971 FeS/SAM binding site; other site 610130000972 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 610130000973 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 610130000974 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 610130000975 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 610130000976 alpha-galactosidase; Provisional; Region: PRK15076 610130000977 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 610130000978 NAD binding site [chemical binding]; other site 610130000979 sugar binding site [chemical binding]; other site 610130000980 divalent metal binding site [ion binding]; other site 610130000981 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130000982 dimer interface [polypeptide binding]; other site 610130000983 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130000984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000985 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130000986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130000987 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 610130000988 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 610130000989 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 610130000990 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 610130000991 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 610130000992 putative L-serine binding site [chemical binding]; other site 610130000993 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 610130000994 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 610130000995 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130000996 MarR family; Region: MarR; pfam01047 610130000997 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130000998 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130000999 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 610130001000 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 610130001001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 610130001002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130001003 Coenzyme A binding pocket [chemical binding]; other site 610130001004 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 610130001005 Catalytic domain of Protein Kinases; Region: PKc; cd00180 610130001006 active site 610130001007 ATP binding site [chemical binding]; other site 610130001008 substrate binding site [chemical binding]; other site 610130001009 activation loop (A-loop); other site 610130001010 Bacterial SH3 domain homologues; Region: SH3b; smart00287 610130001011 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 610130001012 active site 610130001013 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130001014 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130001015 active site 610130001016 metal binding site [ion binding]; metal-binding site 610130001017 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 610130001018 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 610130001019 active site 610130001020 metal binding site [ion binding]; metal-binding site 610130001021 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 610130001022 Ku C terminal domain like; Region: Ku_PK_bind; pfam08785 610130001023 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130001024 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 610130001025 dimer interface [polypeptide binding]; other site 610130001026 conserved gate region; other site 610130001027 putative PBP binding loops; other site 610130001028 ABC-ATPase subunit interface; other site 610130001029 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 610130001030 dimer interface [polypeptide binding]; other site 610130001031 conserved gate region; other site 610130001032 putative PBP binding loops; other site 610130001033 ABC-ATPase subunit interface; other site 610130001034 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130001035 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130001036 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130001037 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130001038 MarR family; Region: MarR_2; pfam12802 610130001039 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 610130001040 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 610130001041 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130001042 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130001043 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 610130001044 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 610130001045 dimerization interface [polypeptide binding]; other site 610130001046 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130001047 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130001048 dimer interface [polypeptide binding]; other site 610130001049 putative CheW interface [polypeptide binding]; other site 610130001050 asparagine synthetase A; Reviewed; Region: PRK06462 610130001051 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 610130001052 dimer interface [polypeptide binding]; other site 610130001053 active site 610130001054 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 610130001055 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 610130001056 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 610130001057 catalytic motif [active] 610130001058 Zn binding site [ion binding]; other site 610130001059 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 610130001060 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 610130001061 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 610130001062 FeS/SAM binding site; other site 610130001063 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 610130001064 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 610130001065 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 610130001066 minor groove reading motif; other site 610130001067 helix-hairpin-helix signature motif; other site 610130001068 substrate binding pocket [chemical binding]; other site 610130001069 active site 610130001070 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 610130001071 active site 610130001072 catalytic site [active] 610130001073 substrate binding site [chemical binding]; other site 610130001074 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 610130001075 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 610130001076 VanW like protein; Region: VanW; pfam04294 610130001077 G5 domain; Region: G5; pfam07501 610130001078 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 610130001079 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 610130001080 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 610130001081 AsnC family; Region: AsnC_trans_reg; pfam01037 610130001082 hypothetical protein; Validated; Region: PRK07682 610130001083 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 610130001084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130001085 homodimer interface [polypeptide binding]; other site 610130001086 catalytic residue [active] 610130001087 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 610130001088 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130001089 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 610130001090 dimerization interface [polypeptide binding]; other site 610130001091 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 610130001092 dimer interface [polypeptide binding]; other site 610130001093 phosphorylation site [posttranslational modification] 610130001094 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 610130001095 ATP binding site [chemical binding]; other site 610130001096 Mg2+ binding site [ion binding]; other site 610130001097 G-X-G motif; other site 610130001098 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130001099 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 610130001100 active site 610130001101 phosphorylation site [posttranslational modification] 610130001102 intermolecular recognition site; other site 610130001103 dimerization interface [polypeptide binding]; other site 610130001104 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 610130001105 DNA binding site [nucleotide binding] 610130001106 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 610130001107 MutS domain III; Region: MutS_III; pfam05192 610130001108 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 610130001109 Walker A/P-loop; other site 610130001110 ATP binding site [chemical binding]; other site 610130001111 Q-loop/lid; other site 610130001112 ABC transporter signature motif; other site 610130001113 Walker B; other site 610130001114 D-loop; other site 610130001115 H-loop/switch region; other site 610130001116 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 610130001117 Smr domain; Region: Smr; pfam01713 610130001118 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 610130001119 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 610130001120 protein binding site [polypeptide binding]; other site 610130001121 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 610130001122 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...; Region: YhaM_OBF_like; cd04492 610130001123 generic binding surface I; other site 610130001124 generic binding surface II; other site 610130001125 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130001126 Zn2+ binding site [ion binding]; other site 610130001127 Mg2+ binding site [ion binding]; other site 610130001128 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130001129 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 610130001130 active site 610130001131 phosphorylation site [posttranslational modification] 610130001132 intermolecular recognition site; other site 610130001133 dimerization interface [polypeptide binding]; other site 610130001134 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 610130001135 DNA binding site [nucleotide binding] 610130001136 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130001137 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 610130001138 dimer interface [polypeptide binding]; other site 610130001139 phosphorylation site [posttranslational modification] 610130001140 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 610130001141 ATP binding site [chemical binding]; other site 610130001142 Mg2+ binding site [ion binding]; other site 610130001143 G-X-G motif; other site 610130001144 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 610130001145 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 610130001146 active site 610130001147 dimer interface [polypeptide binding]; other site 610130001148 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 610130001149 PhoU domain; Region: PhoU; pfam01895 610130001150 PhoU domain; Region: PhoU; pfam01895 610130001151 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 610130001152 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 610130001153 Walker A/P-loop; other site 610130001154 ATP binding site [chemical binding]; other site 610130001155 Q-loop/lid; other site 610130001156 ABC transporter signature motif; other site 610130001157 Walker B; other site 610130001158 D-loop; other site 610130001159 H-loop/switch region; other site 610130001160 sulfate transport protein; Provisional; Region: cysT; CHL00187 610130001161 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 610130001162 dimer interface [polypeptide binding]; other site 610130001163 conserved gate region; other site 610130001164 putative PBP binding loops; other site 610130001165 ABC-ATPase subunit interface; other site 610130001166 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 610130001167 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 610130001168 dimer interface [polypeptide binding]; other site 610130001169 conserved gate region; other site 610130001170 putative PBP binding loops; other site 610130001171 ABC-ATPase subunit interface; other site 610130001172 PBP superfamily domain; Region: PBP_like_2; cl17296 610130001173 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 610130001174 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 610130001175 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 610130001176 Low molecular weight phosphatase family; Region: LMWPc; cd00115 610130001177 active site 610130001178 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130001179 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130001180 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 610130001181 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130001182 Zn2+ binding site [ion binding]; other site 610130001183 Mg2+ binding site [ion binding]; other site 610130001184 Stage III sporulation protein D; Region: SpoIIID; pfam12116 610130001185 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 610130001186 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 610130001187 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130001188 catalytic residue [active] 610130001189 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 610130001190 spermidine synthase; Provisional; Region: PRK00811 610130001191 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 610130001192 S-adenosylmethionine binding site [chemical binding]; other site 610130001193 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 610130001194 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 610130001195 NAD(P) binding pocket [chemical binding]; other site 610130001196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130001197 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 610130001198 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 610130001199 dimer interface [polypeptide binding]; other site 610130001200 active site 610130001201 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 610130001202 catalytic residues [active] 610130001203 substrate binding site [chemical binding]; other site 610130001204 agmatine deiminase; Provisional; Region: PRK13551 610130001205 agmatine deiminase; Region: agmatine_aguA; TIGR03380 610130001206 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 610130001207 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 610130001208 putative active site; other site 610130001209 catalytic triad [active] 610130001210 putative dimer interface [polypeptide binding]; other site 610130001211 PrcB C-terminal; Region: PrcB_C; pfam14343 610130001212 serine O-acetyltransferase; Region: cysE; TIGR01172 610130001213 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 610130001214 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 610130001215 trimer interface [polypeptide binding]; other site 610130001216 active site 610130001217 substrate binding site [chemical binding]; other site 610130001218 CoA binding site [chemical binding]; other site 610130001219 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 610130001220 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 610130001221 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 610130001222 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 610130001223 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130001224 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 610130001225 GIY-YIG motif/motif A; other site 610130001226 putative active site [active] 610130001227 putative metal binding site [ion binding]; other site 610130001228 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 610130001229 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 610130001230 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 610130001231 FMN binding site [chemical binding]; other site 610130001232 dimer interface [polypeptide binding]; other site 610130001233 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 610130001234 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 610130001235 active site 610130001236 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 610130001237 prolyl-tRNA synthetase; Provisional; Region: PRK08661 610130001238 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 610130001239 dimer interface [polypeptide binding]; other site 610130001240 motif 1; other site 610130001241 active site 610130001242 motif 2; other site 610130001243 motif 3; other site 610130001244 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 610130001245 anticodon binding site; other site 610130001246 zinc-binding site [ion binding]; other site 610130001247 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 610130001248 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 610130001249 active site 610130001250 NTP binding site [chemical binding]; other site 610130001251 metal binding triad [ion binding]; metal-binding site 610130001252 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 610130001253 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 610130001254 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 610130001255 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 610130001256 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 610130001257 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 610130001258 active site 610130001259 substrate binding site [chemical binding]; other site 610130001260 metal binding site [ion binding]; metal-binding site 610130001261 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 610130001262 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 610130001263 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 610130001264 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130001265 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130001266 ABC transporter; Region: ABC_tran_2; pfam12848 610130001267 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130001268 rod shape-determining protein Mbl; Provisional; Region: PRK13928 610130001269 MreB and similar proteins; Region: MreB_like; cd10225 610130001270 nucleotide binding site [chemical binding]; other site 610130001271 Mg binding site [ion binding]; other site 610130001272 putative protofilament interaction site [polypeptide binding]; other site 610130001273 RodZ interaction site [polypeptide binding]; other site 610130001274 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 610130001275 AAA domain; Region: AAA_30; pfam13604 610130001276 Family description; Region: UvrD_C_2; pfam13538 610130001277 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 610130001278 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130001279 active site 610130001280 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 610130001281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130001282 Coenzyme A binding pocket [chemical binding]; other site 610130001283 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 610130001284 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130001285 DNA binding residues [nucleotide binding] 610130001286 dimer interface [polypeptide binding]; other site 610130001287 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 610130001288 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 610130001289 S-adenosylmethionine binding site [chemical binding]; other site 610130001290 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 610130001291 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 610130001292 substrate binding site; other site 610130001293 tetramer interface; other site 610130001294 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 610130001295 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 610130001296 NAD binding site [chemical binding]; other site 610130001297 substrate binding site [chemical binding]; other site 610130001298 homodimer interface [polypeptide binding]; other site 610130001299 active site 610130001300 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 610130001301 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 610130001302 NADP binding site [chemical binding]; other site 610130001303 active site 610130001304 putative substrate binding site [chemical binding]; other site 610130001305 Cupin domain; Region: Cupin_2; pfam07883 610130001306 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130001307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130001308 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130001309 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130001310 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 610130001311 dimer interface [polypeptide binding]; other site 610130001312 conserved gate region; other site 610130001313 putative PBP binding loops; other site 610130001314 ABC-ATPase subunit interface; other site 610130001315 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130001316 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 610130001317 dimer interface [polypeptide binding]; other site 610130001318 conserved gate region; other site 610130001319 putative PBP binding loops; other site 610130001320 ABC-ATPase subunit interface; other site 610130001321 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 610130001322 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 610130001323 metal binding site [ion binding]; metal-binding site 610130001324 substrate binding pocket [chemical binding]; other site 610130001325 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 610130001326 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 610130001327 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 610130001328 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 610130001329 putative homodimer interface [polypeptide binding]; other site 610130001330 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 610130001331 heterodimer interface [polypeptide binding]; other site 610130001332 homodimer interface [polypeptide binding]; other site 610130001333 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 610130001334 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 610130001335 23S rRNA interface [nucleotide binding]; other site 610130001336 L7/L12 interface [polypeptide binding]; other site 610130001337 putative thiostrepton binding site; other site 610130001338 L25 interface [polypeptide binding]; other site 610130001339 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 610130001340 mRNA/rRNA interface [nucleotide binding]; other site 610130001341 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 610130001342 23S rRNA interface [nucleotide binding]; other site 610130001343 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 610130001344 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 610130001345 core dimer interface [polypeptide binding]; other site 610130001346 peripheral dimer interface [polypeptide binding]; other site 610130001347 L10 interface [polypeptide binding]; other site 610130001348 L11 interface [polypeptide binding]; other site 610130001349 putative EF-Tu interaction site [polypeptide binding]; other site 610130001350 putative EF-G interaction site [polypeptide binding]; other site 610130001351 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 610130001352 DNA-binding site [nucleotide binding]; DNA binding site 610130001353 RNA-binding motif; other site 610130001354 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 610130001355 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 610130001356 NodB motif; other site 610130001357 active site 610130001358 catalytic site [active] 610130001359 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130001360 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 610130001361 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 610130001362 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 610130001363 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 610130001364 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 610130001365 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 610130001366 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 610130001367 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 610130001368 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 610130001369 Cna protein B-type domain; Region: Cna_B; pfam05738 610130001370 Cna protein B-type domain; Region: Cna_B; pfam05738 610130001371 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130001372 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130001373 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 610130001374 OstA-like protein; Region: OstA; cl00844 610130001375 recombination factor protein RarA; Reviewed; Region: PRK13342 610130001376 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 610130001377 Walker A motif; other site 610130001378 ATP binding site [chemical binding]; other site 610130001379 Walker B motif; other site 610130001380 arginine finger; other site 610130001381 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 610130001382 transcription termination factor Rho; Provisional; Region: rho; PRK09376 610130001383 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 610130001384 RNA binding site [nucleotide binding]; other site 610130001385 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130001386 Walker A motif; other site 610130001387 ATP binding site [chemical binding]; other site 610130001388 Walker B motif; other site 610130001389 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 610130001390 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 610130001391 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 610130001392 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 610130001393 S-adenosylmethionine binding site [chemical binding]; other site 610130001394 peptide chain release factor 1; Validated; Region: prfA; PRK00591 610130001395 This domain is found in peptide chain release factors; Region: PCRF; smart00937 610130001396 RF-1 domain; Region: RF-1; pfam00472 610130001397 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130001398 HTH domain; Region: HTH_11; cl17392 610130001399 Mga helix-turn-helix domain; Region: Mga; pfam05043 610130001400 PRD domain; Region: PRD; pfam00874 610130001401 PRD domain; Region: PRD; pfam00874 610130001402 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 610130001403 active site 610130001404 P-loop; other site 610130001405 phosphorylation site [posttranslational modification] 610130001406 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 610130001407 active site 610130001408 phosphorylation site [posttranslational modification] 610130001409 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 610130001410 methionine cluster; other site 610130001411 active site 610130001412 phosphorylation site [posttranslational modification] 610130001413 metal binding site [ion binding]; metal-binding site 610130001414 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 610130001415 active site 610130001416 P-loop; other site 610130001417 phosphorylation site [posttranslational modification] 610130001418 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 610130001419 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 610130001420 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130001421 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 610130001422 NAD binding site [chemical binding]; other site 610130001423 sugar binding site [chemical binding]; other site 610130001424 divalent metal binding site [ion binding]; other site 610130001425 tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130001426 dimer interface [polypeptide binding]; other site 610130001427 Glycosyl hydrolase family 46 chitosanase domain. This family are composed of the chitosanase enzymes which hydrolyzes chitosan, a biopolymer of beta (1,4)-linked -D-glucosamine (GlcN) residues produced by partial or full deacetylation of chitin; Region: chitosanase_glyco_hydro_46; cd00978 610130001428 chitosan binding site [chemical binding]; other site 610130001429 catalytic residues [active] 610130001430 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 610130001431 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130001432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130001433 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 610130001434 dimerization interface [polypeptide binding]; other site 610130001435 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130001436 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130001437 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130001438 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 610130001439 Clp amino terminal domain; Region: Clp_N; pfam02861 610130001440 Clp amino terminal domain; Region: Clp_N; pfam02861 610130001441 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 610130001442 Walker A motif; other site 610130001443 ATP binding site [chemical binding]; other site 610130001444 Walker B motif; other site 610130001445 arginine finger; other site 610130001446 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 610130001447 Walker A motif; other site 610130001448 ATP binding site [chemical binding]; other site 610130001449 Walker B motif; other site 610130001450 arginine finger; other site 610130001451 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 610130001452 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 610130001453 active site 610130001454 homodimer interface [polypeptide binding]; other site 610130001455 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 610130001456 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 610130001457 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 610130001458 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 610130001459 putative active site [active] 610130001460 catalytic site [active] 610130001461 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 610130001462 putative active site [active] 610130001463 catalytic site [active] 610130001464 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 610130001465 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 610130001466 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 610130001467 putative acyl-acceptor binding pocket; other site 610130001468 hypothetical protein; Provisional; Region: PRK07248 610130001469 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 610130001470 Prephenate dehydratase; Region: PDT; pfam00800 610130001471 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 610130001472 putative L-Phe binding site [chemical binding]; other site 610130001473 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 610130001474 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 610130001475 Walker A motif; other site 610130001476 ATP binding site [chemical binding]; other site 610130001477 Walker B motif; other site 610130001478 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 610130001479 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 610130001480 polyphosphate kinase; Provisional; Region: PRK05443 610130001481 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 610130001482 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 610130001483 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 610130001484 putative domain interface [polypeptide binding]; other site 610130001485 putative active site [active] 610130001486 catalytic site [active] 610130001487 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 610130001488 putative domain interface [polypeptide binding]; other site 610130001489 putative active site [active] 610130001490 catalytic site [active] 610130001491 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130001492 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 610130001493 active site 610130001494 phosphorylation site [posttranslational modification] 610130001495 intermolecular recognition site; other site 610130001496 dimerization interface [polypeptide binding]; other site 610130001497 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 610130001498 DNA binding site [nucleotide binding] 610130001499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130001500 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 610130001501 dimerization interface [polypeptide binding]; other site 610130001502 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 610130001503 dimer interface [polypeptide binding]; other site 610130001504 phosphorylation site [posttranslational modification] 610130001505 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 610130001506 ATP binding site [chemical binding]; other site 610130001507 Mg2+ binding site [ion binding]; other site 610130001508 G-X-G motif; other site 610130001509 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130001510 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 610130001511 Walker A/P-loop; other site 610130001512 ATP binding site [chemical binding]; other site 610130001513 Q-loop/lid; other site 610130001514 ABC transporter signature motif; other site 610130001515 Walker B; other site 610130001516 D-loop; other site 610130001517 H-loop/switch region; other site 610130001518 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 610130001519 endonuclease IV; Provisional; Region: PRK01060 610130001520 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; cd00019 610130001521 AP (apurinic/apyrimidinic) site pocket; other site 610130001522 DNA interaction; other site 610130001523 Metal-binding active site; metal-binding site 610130001524 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 610130001525 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 610130001526 Repair protein; Region: Repair_PSII; pfam04536 610130001527 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 610130001528 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 610130001529 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 610130001530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130001531 catalytic residue [active] 610130001532 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130001533 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 610130001534 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 610130001535 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 610130001536 intersubunit interface [polypeptide binding]; other site 610130001537 active site 610130001538 zinc binding site [ion binding]; other site 610130001539 Na+ binding site [ion binding]; other site 610130001540 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 610130001541 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 610130001542 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 610130001543 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 610130001544 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 610130001545 active site 610130001546 dimer interface [polypeptide binding]; other site 610130001547 Cupin domain; Region: Cupin_2; pfam07883 610130001548 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130001549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130001550 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 610130001551 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 610130001552 putative oligomer interface [polypeptide binding]; other site 610130001553 putative active site [active] 610130001554 metal binding site [ion binding]; metal-binding site 610130001555 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 610130001556 active site 610130001557 methionine cluster; other site 610130001558 phosphorylation site [posttranslational modification] 610130001559 metal binding site [ion binding]; metal-binding site 610130001560 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130001561 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 610130001562 NAD binding site [chemical binding]; other site 610130001563 sugar binding site [chemical binding]; other site 610130001564 divalent metal binding site [ion binding]; other site 610130001565 tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130001566 dimer interface [polypeptide binding]; other site 610130001567 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 610130001568 active site 610130001569 P-loop; other site 610130001570 phosphorylation site [posttranslational modification] 610130001571 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 610130001572 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 610130001573 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 610130001574 beta-galactosidase; Region: BGL; TIGR03356 610130001575 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 610130001576 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130001577 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130001578 DNA-binding site [nucleotide binding]; DNA binding site 610130001579 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 610130001580 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 610130001581 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 610130001582 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 610130001583 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 610130001584 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 610130001585 dimer interface [polypeptide binding]; other site 610130001586 conserved gate region; other site 610130001587 putative PBP binding loops; other site 610130001588 ABC-ATPase subunit interface; other site 610130001589 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 610130001590 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 610130001591 substrate binding pocket [chemical binding]; other site 610130001592 membrane-bound complex binding site; other site 610130001593 hinge residues; other site 610130001594 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 610130001595 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 610130001596 Walker A/P-loop; other site 610130001597 ATP binding site [chemical binding]; other site 610130001598 Q-loop/lid; other site 610130001599 ABC transporter signature motif; other site 610130001600 Walker B; other site 610130001601 D-loop; other site 610130001602 H-loop/switch region; other site 610130001603 Uncharacterized conserved protein [Function unknown]; Region: COG3589 610130001604 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 610130001605 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 610130001606 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 610130001607 active site 610130001608 motif I; other site 610130001609 motif II; other site 610130001610 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 610130001611 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 610130001612 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130001613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130001614 DNA-binding site [nucleotide binding]; DNA binding site 610130001615 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 610130001616 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130001617 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 610130001618 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130001619 Walker A/P-loop; other site 610130001620 ATP binding site [chemical binding]; other site 610130001621 Q-loop/lid; other site 610130001622 ABC transporter signature motif; other site 610130001623 Walker B; other site 610130001624 D-loop; other site 610130001625 H-loop/switch region; other site 610130001626 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130001627 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130001628 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 610130001629 TM-ABC transporter signature motif; other site 610130001630 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130001631 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 610130001632 TM-ABC transporter signature motif; other site 610130001633 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 610130001634 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 610130001635 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 610130001636 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 610130001637 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 610130001638 active site 610130001639 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 610130001640 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 610130001641 active site 610130001642 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 610130001643 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 610130001644 substrate binding site; other site 610130001645 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 610130001646 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 610130001647 NAD binding site [chemical binding]; other site 610130001648 homotetramer interface [polypeptide binding]; other site 610130001649 homodimer interface [polypeptide binding]; other site 610130001650 substrate binding site [chemical binding]; other site 610130001651 active site 610130001652 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 610130001653 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 610130001654 inhibitor-cofactor binding pocket; inhibition site 610130001655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130001656 catalytic residue [active] 610130001657 LicD family; Region: LicD; cl01378 610130001658 BCCT family transporter; Region: BCCT; pfam02028 610130001659 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 610130001660 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 610130001661 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 610130001662 Cupin domain; Region: Cupin_2; cl17218 610130001663 Helix-turn-helix domain; Region: HTH_18; pfam12833 610130001664 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130001665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130001666 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 610130001667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130001668 Clp protease; Region: CLP_protease; pfam00574 610130001669 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 610130001670 oligomer interface [polypeptide binding]; other site 610130001671 active site residues [active] 610130001672 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 610130001673 non-specific DNA binding site [nucleotide binding]; other site 610130001674 salt bridge; other site 610130001675 sequence-specific DNA binding site [nucleotide binding]; other site 610130001676 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 610130001677 active site 610130001678 catalytic residues [active] 610130001679 metal binding site [ion binding]; metal-binding site 610130001680 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 610130001681 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130001682 putative substrate translocation pore; other site 610130001683 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 610130001684 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 610130001685 active site 610130001686 Helix-turn-helix domain; Region: HTH_38; pfam13936 610130001687 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 610130001688 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 610130001689 active site 610130001690 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 610130001691 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 610130001692 Protein of unknown function, DUF624; Region: DUF624; pfam04854 610130001693 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 610130001694 synthetase active site [active] 610130001695 NTP binding site [chemical binding]; other site 610130001696 metal binding site [ion binding]; metal-binding site 610130001697 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 610130001698 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 610130001699 Nitrogen regulatory protein P-II; Region: P-II; smart00938 610130001700 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 610130001701 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 610130001702 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 610130001703 Transcriptional regulators [Transcription]; Region: GntR; COG1802 610130001704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130001705 DNA-binding site [nucleotide binding]; DNA binding site 610130001706 FCD domain; Region: FCD; pfam07729 610130001707 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130001708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130001709 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 610130001710 HlyD family secretion protein; Region: HlyD_3; pfam13437 610130001711 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 610130001712 Protein export membrane protein; Region: SecD_SecF; cl14618 610130001713 Protein export membrane protein; Region: SecD_SecF; cl14618 610130001714 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 610130001715 Outer membrane efflux protein; Region: OEP; pfam02321 610130001716 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 610130001717 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 610130001718 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 610130001719 ATP-grasp domain; Region: ATP-grasp_4; cl17255 610130001720 glutamate racemase; Provisional; Region: PRK00865 610130001721 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 610130001722 AAA domain; Region: AAA_21; pfam13304 610130001723 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 610130001724 active site 610130001725 DNA binding site [nucleotide binding] 610130001726 Int/Topo IB signature motif; other site 610130001727 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 610130001728 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 610130001729 active site 610130001730 DNA binding site [nucleotide binding] 610130001731 Int/Topo IB signature motif; other site 610130001732 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130001733 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 610130001734 Bacterial sugar transferase; Region: Bac_transf; pfam02397 610130001735 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 610130001736 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130001737 putative ADP-binding pocket [chemical binding]; other site 610130001738 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 610130001739 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 610130001740 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 610130001741 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 610130001742 Walker A/P-loop; other site 610130001743 ATP binding site [chemical binding]; other site 610130001744 Q-loop/lid; other site 610130001745 ABC transporter signature motif; other site 610130001746 Walker B; other site 610130001747 D-loop; other site 610130001748 H-loop/switch region; other site 610130001749 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130001750 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 610130001751 putative ADP-binding pocket [chemical binding]; other site 610130001752 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 610130001753 putative ADP-binding pocket [chemical binding]; other site 610130001754 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130001755 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130001756 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 610130001757 putative ADP-binding pocket [chemical binding]; other site 610130001758 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 610130001759 putative ADP-binding pocket [chemical binding]; other site 610130001760 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130001761 WxcM-like, C-terminal; Region: FdtA; pfam05523 610130001762 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 610130001763 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 610130001764 Ligand binding site; other site 610130001765 Putative Catalytic site; other site 610130001766 DXD motif; other site 610130001767 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 610130001768 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 610130001769 Coenzyme A binding pocket [chemical binding]; other site 610130001770 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 610130001771 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 610130001772 inhibitor-cofactor binding pocket; inhibition site 610130001773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130001774 catalytic residue [active] 610130001775 Predicted membrane protein [Function unknown]; Region: COG2246 610130001776 GtrA-like protein; Region: GtrA; pfam04138 610130001777 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 610130001778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 610130001779 Transposase; Region: HTH_Tnp_1; cl17663 610130001780 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 610130001781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 610130001782 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 610130001783 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 610130001784 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 610130001785 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 610130001786 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 610130001787 Transposase; Region: HTH_Tnp_1; cl17663 610130001788 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 610130001789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 610130001790 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130001791 MarR family; Region: MarR; pfam01047 610130001792 MarR family; Region: MarR_2; cl17246 610130001793 Pirin-related protein [General function prediction only]; Region: COG1741 610130001794 Pirin; Region: Pirin; pfam02678 610130001795 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 610130001796 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 610130001797 dimer interface [polypeptide binding]; other site 610130001798 FMN binding site [chemical binding]; other site 610130001799 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130001800 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 610130001801 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 610130001802 PYR/PP interface [polypeptide binding]; other site 610130001803 dimer interface [polypeptide binding]; other site 610130001804 TPP binding site [chemical binding]; other site 610130001805 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 610130001806 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 610130001807 TPP-binding site [chemical binding]; other site 610130001808 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 610130001809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130001810 NAD(P) binding site [chemical binding]; other site 610130001811 active site 610130001812 Methyltransferase domain; Region: Methyltransf_23; pfam13489 610130001813 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 610130001814 S-adenosylmethionine binding site [chemical binding]; other site 610130001815 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 610130001816 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 610130001817 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 610130001818 tetramer interface [polypeptide binding]; other site 610130001819 catalytic Zn binding site [ion binding]; other site 610130001820 NADP binding site [chemical binding]; other site 610130001821 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 610130001822 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 610130001823 Ligand binding site; other site 610130001824 Putative Catalytic site; other site 610130001825 DXD motif; other site 610130001826 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 610130001827 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 610130001828 Probable Catalytic site; other site 610130001829 metal-binding site 610130001830 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 610130001831 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 610130001832 Probable Catalytic site; other site 610130001833 metal-binding site 610130001834 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 610130001835 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 610130001836 Probable Catalytic site; other site 610130001837 metal-binding site 610130001838 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 610130001839 Bacterial sugar transferase; Region: Bac_transf; pfam02397 610130001840 Transcriptional regulator [Transcription]; Region: LytR; COG1316 610130001841 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 610130001842 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 610130001843 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 610130001844 protein binding site [polypeptide binding]; other site 610130001845 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130001846 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130001847 DNA binding site [nucleotide binding] 610130001848 domain linker motif; other site 610130001849 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130001850 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130001851 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 610130001852 dimer interface [polypeptide binding]; other site 610130001853 conserved gate region; other site 610130001854 putative PBP binding loops; other site 610130001855 ABC-ATPase subunit interface; other site 610130001856 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130001857 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 610130001858 dimer interface [polypeptide binding]; other site 610130001859 conserved gate region; other site 610130001860 putative PBP binding loops; other site 610130001861 ABC-ATPase subunit interface; other site 610130001862 putative hydrolase; Provisional; Region: PRK02113 610130001863 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 610130001864 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130001865 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130001866 active site 610130001867 metal binding site [ion binding]; metal-binding site 610130001868 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 610130001869 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 610130001870 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 610130001871 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 610130001872 active site 610130001873 catalytic site [active] 610130001874 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130001875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130001876 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 610130001877 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 610130001878 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 610130001879 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 610130001880 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 610130001881 Walker A motif; other site 610130001882 ATP binding site [chemical binding]; other site 610130001883 Walker B motif; other site 610130001884 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 610130001885 Lipoprotein signal peptidase [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: LspA; COG0597 610130001886 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 610130001887 Domain of unknown function DUF21; Region: DUF21; pfam01595 610130001888 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 610130001889 Transporter associated domain; Region: CorC_HlyC; smart01091 610130001890 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 610130001891 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 610130001892 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 610130001893 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 610130001894 FeS/SAM binding site; other site 610130001895 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 610130001896 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 610130001897 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 610130001898 Protein export membrane protein; Region: SecD_SecF; pfam02355 610130001899 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 610130001900 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 610130001901 Preprotein translocase subunit; Region: YajC; pfam02699 610130001902 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130001903 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130001904 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 610130001905 dimer interface [polypeptide binding]; other site 610130001906 conserved gate region; other site 610130001907 putative PBP binding loops; other site 610130001908 ABC-ATPase subunit interface; other site 610130001909 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130001910 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 610130001911 dimer interface [polypeptide binding]; other site 610130001912 conserved gate region; other site 610130001913 putative PBP binding loops; other site 610130001914 ABC-ATPase subunit interface; other site 610130001915 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 610130001916 intersubunit interface [polypeptide binding]; other site 610130001917 active site 610130001918 zinc binding site [ion binding]; other site 610130001919 Na+ binding site [ion binding]; other site 610130001920 ADP-specific Phosphofructokinase/Glucokinase conserved region; Region: ADP_PFK_GK; cl14060 610130001921 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130001922 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130001923 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 610130001924 putative active site [active] 610130001925 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 610130001926 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 610130001927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130001928 NAD(P) binding site [chemical binding]; other site 610130001929 active site 610130001930 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 610130001931 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130001932 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130001933 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 610130001934 30S subunit binding site; other site 610130001935 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 610130001936 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 610130001937 ATP binding site [chemical binding]; other site 610130001938 putative Mg++ binding site [ion binding]; other site 610130001939 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 610130001940 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 610130001941 nucleotide binding region [chemical binding]; other site 610130001942 ATP-binding site [chemical binding]; other site 610130001943 SEC-C motif; Region: SEC-C; pfam02810 610130001944 peptide chain release factor 2; Validated; Region: prfB; PRK00578 610130001945 This domain is found in peptide chain release factors; Region: PCRF; smart00937 610130001946 RF-1 domain; Region: RF-1; pfam00472 610130001947 hypothetical protein; Provisional; Region: PRK04435 610130001948 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 610130001949 homoserine dehydrogenase; Provisional; Region: PRK06349 610130001950 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 610130001951 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 610130001952 aspartate kinase; Reviewed; Region: PRK06635 610130001953 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 610130001954 putative nucleotide binding site [chemical binding]; other site 610130001955 putative catalytic residues [active] 610130001956 putative Mg ion binding site [ion binding]; other site 610130001957 putative aspartate binding site [chemical binding]; other site 610130001958 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 610130001959 putative allosteric regulatory site; other site 610130001960 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 610130001961 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 610130001962 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 610130001963 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 610130001964 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 610130001965 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 610130001966 RNA binding site [nucleotide binding]; other site 610130001967 YcxB-like protein; Region: YcxB; pfam14317 610130001968 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 610130001969 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 610130001970 Glycoprotease family; Region: Peptidase_M22; pfam00814 610130001971 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 610130001972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130001973 Coenzyme A binding pocket [chemical binding]; other site 610130001974 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 610130001975 ribonuclease Z; Reviewed; Region: PRK00055 610130001976 UGMP family protein; Validated; Region: PRK09604 610130001977 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 610130001978 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 610130001979 substrate binding site; other site 610130001980 dimer interface; other site 610130001981 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130001982 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 610130001983 non-specific DNA binding site [nucleotide binding]; other site 610130001984 salt bridge; other site 610130001985 sequence-specific DNA binding site [nucleotide binding]; other site 610130001986 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 610130001987 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 610130001988 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 610130001989 active site 610130001990 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 610130001991 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 610130001992 peptide binding site [polypeptide binding]; other site 610130001993 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 610130001994 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 610130001995 dimer interface [polypeptide binding]; other site 610130001996 conserved gate region; other site 610130001997 putative PBP binding loops; other site 610130001998 ABC-ATPase subunit interface; other site 610130001999 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 610130002000 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 610130002001 dimer interface [polypeptide binding]; other site 610130002002 conserved gate region; other site 610130002003 putative PBP binding loops; other site 610130002004 ABC-ATPase subunit interface; other site 610130002005 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 610130002006 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130002007 Walker A/P-loop; other site 610130002008 ATP binding site [chemical binding]; other site 610130002009 Q-loop/lid; other site 610130002010 ABC transporter signature motif; other site 610130002011 Walker B; other site 610130002012 D-loop; other site 610130002013 H-loop/switch region; other site 610130002014 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 610130002015 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 610130002016 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130002017 Walker A/P-loop; other site 610130002018 ATP binding site [chemical binding]; other site 610130002019 Q-loop/lid; other site 610130002020 ABC transporter signature motif; other site 610130002021 Walker B; other site 610130002022 D-loop; other site 610130002023 H-loop/switch region; other site 610130002024 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 610130002025 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 610130002026 transmembrane helices; other site 610130002027 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 610130002028 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130002029 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130002030 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 610130002031 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 610130002032 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 610130002033 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 610130002034 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 610130002035 dimer interface [polypeptide binding]; other site 610130002036 conserved gate region; other site 610130002037 putative PBP binding loops; other site 610130002038 ABC-ATPase subunit interface; other site 610130002039 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 610130002040 dimer interface [polypeptide binding]; other site 610130002041 conserved gate region; other site 610130002042 putative PBP binding loops; other site 610130002043 ABC-ATPase subunit interface; other site 610130002044 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 610130002045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130002046 Walker A/P-loop; other site 610130002047 ATP binding site [chemical binding]; other site 610130002048 Q-loop/lid; other site 610130002049 ABC transporter signature motif; other site 610130002050 Walker B; other site 610130002051 D-loop; other site 610130002052 H-loop/switch region; other site 610130002053 TOBE domain; Region: TOBE_2; pfam08402 610130002054 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 610130002055 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130002056 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130002057 Histidine kinase; Region: His_kinase; pfam06580 610130002058 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 610130002059 ATP binding site [chemical binding]; other site 610130002060 Mg2+ binding site [ion binding]; other site 610130002061 G-X-G motif; other site 610130002062 Response regulator receiver domain; Region: Response_reg; pfam00072 610130002063 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 610130002064 active site 610130002065 phosphorylation site [posttranslational modification] 610130002066 intermolecular recognition site; other site 610130002067 dimerization interface [polypeptide binding]; other site 610130002068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002069 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130002070 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002071 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 610130002072 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 610130002073 motif II; other site 610130002074 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 610130002075 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 610130002076 ligand binding site [chemical binding]; other site 610130002077 flexible hinge region; other site 610130002078 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 610130002079 Protein of unknown function DUF45; Region: DUF45; pfam01863 610130002080 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 610130002081 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 610130002082 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 610130002083 dimerization interface [polypeptide binding]; other site 610130002084 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 610130002085 DHH family; Region: DHH; pfam01368 610130002086 DHHA1 domain; Region: DHHA1; pfam02272 610130002087 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 610130002088 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 610130002089 dimer interface [polypeptide binding]; other site 610130002090 active site 610130002091 glycine-pyridoxal phosphate binding site [chemical binding]; other site 610130002092 folate binding site [chemical binding]; other site 610130002093 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 610130002094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130002095 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 610130002096 NAD(P) binding site [chemical binding]; other site 610130002097 active site 610130002098 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 610130002099 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 610130002100 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 610130002101 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 610130002102 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 610130002103 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 610130002104 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 610130002105 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 610130002106 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 610130002107 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 610130002108 Walker A/P-loop; other site 610130002109 ATP binding site [chemical binding]; other site 610130002110 Q-loop/lid; other site 610130002111 ABC transporter signature motif; other site 610130002112 Walker B; other site 610130002113 D-loop; other site 610130002114 H-loop/switch region; other site 610130002115 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 610130002116 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 610130002117 FtsX-like permease family; Region: FtsX; pfam02687 610130002118 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 610130002119 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 610130002120 FtsX-like permease family; Region: FtsX; pfam02687 610130002121 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 610130002122 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 610130002123 HlyD family secretion protein; Region: HlyD_3; pfam13437 610130002124 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130002125 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 610130002126 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 610130002127 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 610130002128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 610130002129 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 610130002130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 610130002131 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 610130002132 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 610130002133 Cl binding site [ion binding]; other site 610130002134 oligomer interface [polypeptide binding]; other site 610130002135 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 610130002136 pyruvate kinase; Provisional; Region: PRK05826 610130002137 domain interfaces; other site 610130002138 active site 610130002139 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 610130002140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 610130002141 active site 610130002142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 610130002143 substrate binding site [chemical binding]; other site 610130002144 catalytic residues [active] 610130002145 dimer interface [polypeptide binding]; other site 610130002146 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 610130002147 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 610130002148 metal binding site [ion binding]; metal-binding site 610130002149 dimer interface [polypeptide binding]; other site 610130002150 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 610130002151 active site 610130002152 catalytic triad [active] 610130002153 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 610130002154 hexamer interface [polypeptide binding]; other site 610130002155 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 610130002156 Walker A motif; other site 610130002157 ATP binding site [chemical binding]; other site 610130002158 Walker B motif; other site 610130002159 recombination regulator RecX; Reviewed; Region: recX; PRK00117 610130002160 phosphodiesterase; Provisional; Region: PRK12704 610130002161 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130002162 Zn2+ binding site [ion binding]; other site 610130002163 Mg2+ binding site [ion binding]; other site 610130002164 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 610130002165 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 610130002166 L-arabinose isomerase; Provisional; Region: PRK02929 610130002167 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 610130002168 hexamer (dimer of trimers) interface [polypeptide binding]; other site 610130002169 trimer interface [polypeptide binding]; other site 610130002170 substrate binding site [chemical binding]; other site 610130002171 Mn binding site [ion binding]; other site 610130002172 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 610130002173 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 610130002174 putative N- and C-terminal domain interface [polypeptide binding]; other site 610130002175 putative active site [active] 610130002176 MgATP binding site [chemical binding]; other site 610130002177 catalytic site [active] 610130002178 metal binding site [ion binding]; metal-binding site 610130002179 putative carbohydrate binding site [chemical binding]; other site 610130002180 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 610130002181 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; cd00398 610130002182 intersubunit interface [polypeptide binding]; other site 610130002183 active site 610130002184 Zn2+ binding site [ion binding]; other site 610130002185 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130002186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130002187 DNA-binding site [nucleotide binding]; DNA binding site 610130002188 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130002189 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130002190 Major Facilitator Superfamily; Region: MFS_1; pfam07690 610130002191 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130002192 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130002193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002194 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 610130002195 Predicted membrane protein [Function unknown]; Region: COG4709 610130002196 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130002197 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130002198 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130002199 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130002200 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 610130002201 active site residue [active] 610130002202 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 610130002203 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130002204 active site 610130002205 metal binding site [ion binding]; metal-binding site 610130002206 homotetramer interface [polypeptide binding]; other site 610130002207 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 610130002208 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 610130002209 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 610130002210 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 610130002211 active site 610130002212 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 610130002213 active site 610130002214 dimerization interface [polypeptide binding]; other site 610130002215 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 610130002216 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130002217 active site 610130002218 metal binding site [ion binding]; metal-binding site 610130002219 homotetramer interface [polypeptide binding]; other site 610130002220 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130002221 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 610130002222 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130002223 active site 610130002224 catalytic triad [active] 610130002225 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 610130002226 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 610130002227 nudix motif; other site 610130002228 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 610130002229 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 610130002230 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 610130002231 active site 610130002232 catalytic residues [active] 610130002233 DNA binding site [nucleotide binding] 610130002234 Int/Topo IB signature motif; other site 610130002235 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 610130002236 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130002237 non-specific DNA binding site [nucleotide binding]; other site 610130002238 salt bridge; other site 610130002239 sequence-specific DNA binding site [nucleotide binding]; other site 610130002240 HTH domain; Region: HTH_11; cl17392 610130002241 VRR-NUC domain; Region: VRR_NUC; pfam08774 610130002242 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 610130002243 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 610130002244 P-loop; other site 610130002245 Magnesium ion binding site [ion binding]; other site 610130002246 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 610130002247 Magnesium ion binding site [ion binding]; other site 610130002248 ParB-like nuclease domain; Region: ParB; smart00470 610130002249 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 610130002250 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 610130002251 active site 610130002252 Int/Topo IB signature motif; other site 610130002253 catalytic residues [active] 610130002254 DNA binding site [nucleotide binding] 610130002255 SPFH domain / Band 7 family; Region: Band_7; pfam01145 610130002256 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 610130002257 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 610130002258 active site 610130002259 DNA-directed RNA polymerase subunit A' Region: RNA_pol_rpoA1; TIGR02390 610130002260 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 610130002261 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 610130002262 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 610130002263 NADH dehydrogenase subunit 5; Region: ndhF; CHL00025 610130002264 Phage Terminase; Region: Terminase_1; pfam03354 610130002265 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 610130002266 Phage-related protein [Function unknown]; Region: COG4695; cl01923 610130002267 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 610130002268 oligomer interface [polypeptide binding]; other site 610130002269 active site residues [active] 610130002270 Phage capsid family; Region: Phage_capsid; pfam05065 610130002271 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 610130002272 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 610130002273 Phage tail protein; Region: Sipho_tail; cl17486 610130002274 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 610130002275 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130002276 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: PI3Kc_like; cl00119 610130002277 catalytic loop [active] 610130002278 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130002279 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 610130002280 active site 610130002281 DNA binding site [nucleotide binding] 610130002282 Int/Topo IB signature motif; other site 610130002283 Helix-turn-helix domain; Region: HTH_17; cl17695 610130002284 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 610130002285 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 610130002286 Walker A motif; other site 610130002287 ATP binding site [chemical binding]; other site 610130002288 Walker B motif; other site 610130002289 arginine finger; other site 610130002290 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 610130002291 HflK protein; Region: hflK; TIGR01933 610130002292 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 610130002293 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 610130002294 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 610130002295 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 610130002296 active site 610130002297 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 610130002298 VanZ like family; Region: VanZ; pfam04892 610130002299 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 610130002300 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 610130002301 dimerization interface 3.5A [polypeptide binding]; other site 610130002302 active site 610130002303 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 610130002304 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 610130002305 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 610130002306 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130002307 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 610130002308 DNA binding residues [nucleotide binding] 610130002309 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 610130002310 active site 610130002311 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 610130002312 active site 2 [active] 610130002313 active site 1 [active] 610130002314 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 610130002315 S1 domain; Region: S1_2; pfam13509 610130002316 S1 domain; Region: S1_2; pfam13509 610130002317 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 610130002318 RNA binding site [nucleotide binding]; other site 610130002319 Methyltransferase domain; Region: Methyltransf_23; pfam13489 610130002320 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 610130002321 S-adenosylmethionine binding site [chemical binding]; other site 610130002322 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 610130002323 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 610130002324 Walker A/P-loop; other site 610130002325 ATP binding site [chemical binding]; other site 610130002326 Q-loop/lid; other site 610130002327 ABC transporter signature motif; other site 610130002328 Walker B; other site 610130002329 D-loop; other site 610130002330 H-loop/switch region; other site 610130002331 TOBE domain; Region: TOBE; pfam03459 610130002332 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 610130002333 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 610130002334 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 610130002335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130002336 Walker A/P-loop; other site 610130002337 ATP binding site [chemical binding]; other site 610130002338 Q-loop/lid; other site 610130002339 ABC transporter signature motif; other site 610130002340 Walker B; other site 610130002341 D-loop; other site 610130002342 H-loop/switch region; other site 610130002343 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 610130002344 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 610130002345 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 610130002346 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 610130002347 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 610130002348 protein binding site [polypeptide binding]; other site 610130002349 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 610130002350 Catalytic dyad [active] 610130002351 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 610130002352 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 610130002353 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130002354 catalytic residue [active] 610130002355 excinuclease ABC subunit B; Provisional; Region: PRK05298 610130002356 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 610130002357 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 610130002358 ATP-binding site [chemical binding]; other site 610130002359 ATP binding site [chemical binding]; other site 610130002360 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 610130002361 nucleotide binding region [chemical binding]; other site 610130002362 ATP-binding site [chemical binding]; other site 610130002363 Ultra-violet resistance protein B; Region: UvrB; pfam12344 610130002364 UvrB/uvrC motif; Region: UVR; pfam02151 610130002365 FeoA domain; Region: FeoA; cl00838 610130002366 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 610130002367 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 610130002368 G1 box; other site 610130002369 GTP/Mg2+ binding site [chemical binding]; other site 610130002370 Switch I region; other site 610130002371 G2 box; other site 610130002372 G3 box; other site 610130002373 Switch II region; other site 610130002374 G4 box; other site 610130002375 G5 box; other site 610130002376 Nucleoside recognition; Region: Gate; pfam07670 610130002377 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 610130002378 Nucleoside recognition; Region: Gate; pfam07670 610130002379 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 610130002380 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 610130002381 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 610130002382 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130002383 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130002384 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 610130002385 active site 610130002386 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 610130002387 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 610130002388 FeS/SAM binding site; other site 610130002389 Radical SAM superfamily; Region: Radical_SAM; pfam04055 610130002390 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 610130002391 FeS/SAM binding site; other site 610130002392 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 610130002393 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 610130002394 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 610130002395 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 610130002396 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 610130002397 CoA binding domain; Region: CoA_binding; pfam02629 610130002398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130002399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130002400 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 610130002401 dimerization interface [polypeptide binding]; other site 610130002402 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 610130002403 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 610130002404 putative active site [active] 610130002405 metal binding site [ion binding]; metal-binding site 610130002406 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 610130002407 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 610130002408 active site 610130002409 C-terminal domain interface [polypeptide binding]; other site 610130002410 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 610130002411 active site 610130002412 N-terminal domain interface [polypeptide binding]; other site 610130002413 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 610130002414 ApbE family; Region: ApbE; pfam02424 610130002415 Predicted membrane protein [Function unknown]; Region: COG2246 610130002416 GtrA-like protein; Region: GtrA; pfam04138 610130002417 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 610130002418 argininosuccinate lyase; Provisional; Region: PRK00855 610130002419 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 610130002420 active sites [active] 610130002421 tetramer interface [polypeptide binding]; other site 610130002422 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 610130002423 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 610130002424 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 610130002425 DctM-like transporters; Region: DctM; pfam06808 610130002426 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 610130002427 YcxB-like protein; Region: YcxB; pfam14317 610130002428 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 610130002429 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 610130002430 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 610130002431 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 610130002432 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 610130002433 putative L-serine binding site [chemical binding]; other site 610130002434 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 610130002435 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 610130002436 active site 610130002437 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 610130002438 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 610130002439 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 610130002440 PhoU domain; Region: PhoU; pfam01895 610130002441 PhoU domain; Region: PhoU; pfam01895 610130002442 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 610130002443 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 610130002444 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 610130002445 Phosphoglycerate kinase; Region: PGK; pfam00162 610130002446 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 610130002447 substrate binding site [chemical binding]; other site 610130002448 hinge regions; other site 610130002449 ADP binding site [chemical binding]; other site 610130002450 catalytic site [active] 610130002451 triosephosphate isomerase; Provisional; Region: PRK14567 610130002452 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 610130002453 substrate binding site [chemical binding]; other site 610130002454 dimer interface [polypeptide binding]; other site 610130002455 catalytic triad [active] 610130002456 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 610130002457 phosphoglyceromutase; Provisional; Region: PRK05434 610130002458 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130002459 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130002460 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 610130002461 Walker A/P-loop; other site 610130002462 ATP binding site [chemical binding]; other site 610130002463 Q-loop/lid; other site 610130002464 ABC transporter signature motif; other site 610130002465 Walker B; other site 610130002466 D-loop; other site 610130002467 H-loop/switch region; other site 610130002468 EDD domain protein, DegV family; Region: DegV; TIGR00762 610130002469 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 610130002470 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 610130002471 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 610130002472 dimer interface [polypeptide binding]; other site 610130002473 phosphorylation site [posttranslational modification] 610130002474 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 610130002475 ATP binding site [chemical binding]; other site 610130002476 Mg2+ binding site [ion binding]; other site 610130002477 G-X-G motif; other site 610130002478 Sporulation and spore germination; Region: Germane; pfam10646 610130002479 Sporulation and spore germination; Region: Germane; pfam10646 610130002480 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 610130002481 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 610130002482 Competence protein; Region: Competence; pfam03772 610130002483 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 610130002484 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130002485 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 610130002486 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 610130002487 Domain of unknown function (DUF955); Region: DUF955; pfam06114 610130002488 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 610130002489 non-specific DNA binding site [nucleotide binding]; other site 610130002490 salt bridge; other site 610130002491 sequence-specific DNA binding site [nucleotide binding]; other site 610130002492 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 610130002493 Phage tail tube protein FII; Region: Phage_tube; cl01390 610130002494 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 610130002495 Phage Tail Protein X; Region: Phage_tail_X; cl02088 610130002496 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 610130002497 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 610130002498 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 610130002499 Baseplate J-like protein; Region: Baseplate_J; pfam04865 610130002500 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 610130002501 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 610130002502 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 610130002503 Holin family; Region: Phage_holin_4; pfam05105 610130002504 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 610130002505 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 610130002506 amidase catalytic site [active] 610130002507 Zn binding residues [ion binding]; other site 610130002508 substrate binding site [chemical binding]; other site 610130002509 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 610130002510 CAAX protease self-immunity; Region: Abi; pfam02517 610130002511 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130002512 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130002513 DNA binding site [nucleotide binding] 610130002514 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 610130002515 ligand binding site [chemical binding]; other site 610130002516 dimerization interface [polypeptide binding]; other site 610130002517 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130002518 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 610130002519 dimer interface [polypeptide binding]; other site 610130002520 conserved gate region; other site 610130002521 putative PBP binding loops; other site 610130002522 ABC-ATPase subunit interface; other site 610130002523 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130002524 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 610130002525 dimer interface [polypeptide binding]; other site 610130002526 conserved gate region; other site 610130002527 putative PBP binding loops; other site 610130002528 ABC-ATPase subunit interface; other site 610130002529 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 610130002530 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 610130002531 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 610130002532 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 610130002533 beta-phosphoglucomutase; Region: bPGM; TIGR01990 610130002534 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 610130002535 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 610130002536 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 610130002537 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 610130002538 Ca binding site [ion binding]; other site 610130002539 active site 610130002540 catalytic site [active] 610130002541 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 610130002542 germination protease; Provisional; Region: PRK12362 610130002543 stage II sporulation protein P; Region: spore_II_P; TIGR02867 610130002544 GTP-binding protein LepA; Provisional; Region: PRK05433 610130002545 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 610130002546 G1 box; other site 610130002547 putative GEF interaction site [polypeptide binding]; other site 610130002548 GTP/Mg2+ binding site [chemical binding]; other site 610130002549 Switch I region; other site 610130002550 G2 box; other site 610130002551 G3 box; other site 610130002552 Switch II region; other site 610130002553 G4 box; other site 610130002554 G5 box; other site 610130002555 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 610130002556 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 610130002557 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 610130002558 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 610130002559 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 610130002560 FeS/SAM binding site; other site 610130002561 HemN C-terminal domain; Region: HemN_C; pfam06969 610130002562 3D domain; Region: 3D; cl01439 610130002563 3D domain; Region: 3D; cl01439 610130002564 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 610130002565 GrpE; Region: GrpE; pfam01025 610130002566 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 610130002567 dimer interface [polypeptide binding]; other site 610130002568 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 610130002569 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 610130002570 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 610130002571 nucleotide binding site [chemical binding]; other site 610130002572 NEF interaction site [polypeptide binding]; other site 610130002573 SBD interface [polypeptide binding]; other site 610130002574 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 610130002575 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 610130002576 HSP70 interaction site [polypeptide binding]; other site 610130002577 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 610130002578 substrate binding site [polypeptide binding]; other site 610130002579 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 610130002580 Zn binding sites [ion binding]; other site 610130002581 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 610130002582 dimer interface [polypeptide binding]; other site 610130002583 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130002584 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 610130002585 hypothetical protein; Provisional; Region: PRK10621 610130002586 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 610130002587 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 610130002588 S-adenosylmethionine binding site [chemical binding]; other site 610130002589 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 610130002590 RNA methyltransferase, RsmE family; Region: TIGR00046 610130002591 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 610130002592 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 610130002593 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130002594 catalytic residue [active] 610130002595 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 610130002596 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 610130002597 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 610130002598 Ligand Binding Site [chemical binding]; other site 610130002599 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 610130002600 regulatory protein interface [polypeptide binding]; other site 610130002601 regulatory phosphorylation site [posttranslational modification]; other site 610130002602 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 610130002603 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 610130002604 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 610130002605 FeS/SAM binding site; other site 610130002606 hypothetical protein; Provisional; Region: PRK05473 610130002607 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 610130002608 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 610130002609 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 610130002610 metal binding site 2 [ion binding]; metal-binding site 610130002611 putative DNA binding helix; other site 610130002612 metal binding site 1 [ion binding]; metal-binding site 610130002613 dimer interface [polypeptide binding]; other site 610130002614 structural Zn2+ binding site [ion binding]; other site 610130002615 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 610130002616 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130002617 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 610130002618 YceG-like family; Region: YceG; pfam02618 610130002619 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 610130002620 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 610130002621 S-adenosylmethionine binding site [chemical binding]; other site 610130002622 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 610130002623 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 610130002624 Peptidase family U32; Region: Peptidase_U32; pfam01136 610130002625 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 610130002626 Uncharacterized conserved protein [Function unknown]; Region: COG1434 610130002627 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 610130002628 putative active site [active] 610130002629 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 610130002630 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 610130002631 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 610130002632 Peptidase M16C associated; Region: M16C_assoc; pfam08367 610130002633 GTPase Era; Reviewed; Region: era; PRK00089 610130002634 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 610130002635 G1 box; other site 610130002636 GTP/Mg2+ binding site [chemical binding]; other site 610130002637 Switch I region; other site 610130002638 G2 box; other site 610130002639 Switch II region; other site 610130002640 G3 box; other site 610130002641 G4 box; other site 610130002642 G5 box; other site 610130002643 KH domain; Region: KH_2; pfam07650 610130002644 Recombination protein O N terminal; Region: RecO_N; pfam11967 610130002645 Recombination protein O C terminal; Region: RecO_C; pfam02565 610130002646 glycyl-tRNA synthetase; Provisional; Region: PRK04173 610130002647 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 610130002648 motif 1; other site 610130002649 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 610130002650 active site 610130002651 motif 2; other site 610130002652 motif 3; other site 610130002653 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 610130002654 anticodon binding site; other site 610130002655 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 610130002656 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130002657 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 610130002658 TM-ABC transporter signature motif; other site 610130002659 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130002660 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 610130002661 TM-ABC transporter signature motif; other site 610130002662 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 610130002663 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130002664 Walker A/P-loop; other site 610130002665 ATP binding site [chemical binding]; other site 610130002666 Q-loop/lid; other site 610130002667 ABC transporter signature motif; other site 610130002668 Walker B; other site 610130002669 D-loop; other site 610130002670 H-loop/switch region; other site 610130002671 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130002672 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 610130002673 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 610130002674 ligand binding site [chemical binding]; other site 610130002675 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 610130002676 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130002677 pyruvate phosphate dikinase; Provisional; Region: PRK09279 610130002678 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 610130002679 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 610130002680 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 610130002681 Chromate transporter; Region: Chromate_transp; pfam02417 610130002682 Chromate transporter; Region: Chromate_transp; pfam02417 610130002683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130002684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130002685 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 610130002686 putative dimerization interface [polypeptide binding]; other site 610130002687 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 610130002688 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 610130002689 catalytic residue [active] 610130002690 putative FPP diphosphate binding site; other site 610130002691 putative FPP binding hydrophobic cleft; other site 610130002692 dimer interface [polypeptide binding]; other site 610130002693 putative IPP diphosphate binding site; other site 610130002694 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 610130002695 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 610130002696 ACS interaction site; other site 610130002697 CODH interaction site; other site 610130002698 cubane metal cluster (B-cluster) [ion binding]; other site 610130002699 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 610130002700 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 610130002701 dimerization interface [polypeptide binding]; other site 610130002702 Histidine kinase; Region: His_kinase; pfam06580 610130002703 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 610130002704 ATP binding site [chemical binding]; other site 610130002705 Mg2+ binding site [ion binding]; other site 610130002706 G-X-G motif; other site 610130002707 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130002708 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 610130002709 active site 610130002710 phosphorylation site [posttranslational modification] 610130002711 intermolecular recognition site; other site 610130002712 dimerization interface [polypeptide binding]; other site 610130002713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002715 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130002716 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130002717 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130002718 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130002719 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 610130002720 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 610130002721 dimer interface [polypeptide binding]; other site 610130002722 conserved gate region; other site 610130002723 putative PBP binding loops; other site 610130002724 ABC-ATPase subunit interface; other site 610130002725 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130002726 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 610130002727 dimer interface [polypeptide binding]; other site 610130002728 conserved gate region; other site 610130002729 putative PBP binding loops; other site 610130002730 ABC-ATPase subunit interface; other site 610130002731 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 610130002732 active site 610130002733 catalytic site [active] 610130002734 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 610130002735 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 610130002736 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 610130002737 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 610130002738 active site 610130002739 intersubunit interactions; other site 610130002740 catalytic residue [active] 610130002741 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130002742 Rubredoxin; Region: Rubredoxin; pfam00301 610130002743 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 610130002744 iron binding site [ion binding]; other site 610130002745 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 610130002746 Ferritin-like domain; Region: Ferritin; pfam00210 610130002747 ferroxidase diiron center [ion binding]; other site 610130002748 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 610130002749 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130002750 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 610130002751 XdhC Rossmann domain; Region: XdhC_C; pfam13478 610130002752 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 610130002753 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 610130002754 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 610130002755 catalytic loop [active] 610130002756 iron binding site [ion binding]; other site 610130002757 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 610130002758 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 610130002759 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 610130002760 Uncharacterized conserved protein [Function unknown]; Region: COG1683 610130002761 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 610130002762 aspartate kinase; Reviewed; Region: PRK09034 610130002763 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 610130002764 nucleotide binding site [chemical binding]; other site 610130002765 substrate binding site [chemical binding]; other site 610130002766 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 610130002767 allosteric regulatory residue; other site 610130002768 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 610130002769 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 610130002770 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130002771 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130002772 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 610130002773 active site residue [active] 610130002774 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 610130002775 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 610130002776 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 610130002777 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 610130002778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130002779 homodimer interface [polypeptide binding]; other site 610130002780 catalytic residue [active] 610130002781 Transcriptional regulators [Transcription]; Region: MarR; COG1846 610130002782 MarR family; Region: MarR_2; pfam12802 610130002783 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 610130002784 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 610130002785 Ca binding site [ion binding]; other site 610130002786 active site 610130002787 catalytic site [active] 610130002788 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130002789 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 610130002790 dimer interface [polypeptide binding]; other site 610130002791 conserved gate region; other site 610130002792 putative PBP binding loops; other site 610130002793 ABC-ATPase subunit interface; other site 610130002794 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 610130002795 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 610130002796 dimer interface [polypeptide binding]; other site 610130002797 conserved gate region; other site 610130002798 putative PBP binding loops; other site 610130002799 ABC-ATPase subunit interface; other site 610130002800 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130002801 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130002802 Response regulator receiver domain; Region: Response_reg; pfam00072 610130002803 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 610130002804 active site 610130002805 phosphorylation site [posttranslational modification] 610130002806 intermolecular recognition site; other site 610130002807 dimerization interface [polypeptide binding]; other site 610130002808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002809 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130002810 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130002812 HAMP domain; Region: HAMP; pfam00672 610130002813 Histidine kinase; Region: His_kinase; pfam06580 610130002814 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 610130002815 ATP binding site [chemical binding]; other site 610130002816 Mg2+ binding site [ion binding]; other site 610130002817 G-X-G motif; other site 610130002818 Cupin domain; Region: Cupin_2; pfam07883 610130002819 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130002820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002822 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 610130002823 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 610130002824 Ca binding site [ion binding]; other site 610130002825 active site 610130002826 catalytic site [active] 610130002827 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 610130002828 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 610130002829 active site 610130002830 substrate binding site [chemical binding]; other site 610130002831 trimer interface [polypeptide binding]; other site 610130002832 CoA binding site [chemical binding]; other site 610130002833 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 610130002834 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 610130002835 non-specific DNA binding site [nucleotide binding]; other site 610130002836 salt bridge; other site 610130002837 sequence-specific DNA binding site [nucleotide binding]; other site 610130002838 Cupin domain; Region: Cupin_2; pfam07883 610130002839 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 610130002840 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 610130002841 active site 610130002842 catalytic tetrad [active] 610130002843 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 610130002844 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 610130002845 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 610130002846 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 610130002847 flavoprotein, HI0933 family; Region: TIGR00275 610130002848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130002849 cytidylate kinase; Provisional; Region: cmk; PRK00023 610130002850 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 610130002851 CMP-binding site; other site 610130002852 The sites determining sugar specificity; other site 610130002853 LytB protein; Region: LYTB; cl00507 610130002854 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 610130002855 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 610130002856 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 610130002857 RNA binding site [nucleotide binding]; other site 610130002858 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 610130002859 RNA binding site [nucleotide binding]; other site 610130002860 S1_RPS1_repeat_ec3: 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_ec3; cd05688 610130002861 RNA binding site [nucleotide binding]; other site 610130002862 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 610130002863 RNA binding site [nucleotide binding]; other site 610130002864 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 610130002865 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 610130002866 active site 610130002867 Zn binding site [ion binding]; other site 610130002868 FeoA domain; Region: FeoA; pfam04023 610130002869 FeoA domain; Region: FeoA; pfam04023 610130002870 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 610130002871 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 610130002872 G1 box; other site 610130002873 GTP/Mg2+ binding site [chemical binding]; other site 610130002874 Switch I region; other site 610130002875 G2 box; other site 610130002876 G3 box; other site 610130002877 Switch II region; other site 610130002878 G4 box; other site 610130002879 G5 box; other site 610130002880 Nucleoside recognition; Region: Gate; pfam07670 610130002881 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 610130002882 Nucleoside recognition; Region: Gate; pfam07670 610130002883 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 610130002884 putative DNA binding helix; other site 610130002885 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 610130002886 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130002887 Zn2+ binding site [ion binding]; other site 610130002888 Mg2+ binding site [ion binding]; other site 610130002889 Domain of unknown function DUF77; Region: DUF77; pfam01910 610130002890 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 610130002891 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 610130002892 dimer interface [polypeptide binding]; other site 610130002893 conserved gate region; other site 610130002894 putative PBP binding loops; other site 610130002895 ABC-ATPase subunit interface; other site 610130002896 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 610130002897 NMT1/THI5 like; Region: NMT1; pfam09084 610130002898 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 610130002899 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 610130002900 Walker A/P-loop; other site 610130002901 ATP binding site [chemical binding]; other site 610130002902 Q-loop/lid; other site 610130002903 ABC transporter signature motif; other site 610130002904 Walker B; other site 610130002905 D-loop; other site 610130002906 H-loop/switch region; other site 610130002907 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 610130002908 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 610130002909 DNA binding residues [nucleotide binding] 610130002910 drug binding residues [chemical binding]; other site 610130002911 dimer interface [polypeptide binding]; other site 610130002912 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 610130002913 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 610130002914 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 610130002915 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 610130002916 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130002917 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 610130002918 NAD binding site [chemical binding]; other site 610130002919 sugar binding site [chemical binding]; other site 610130002920 divalent metal binding site [ion binding]; other site 610130002921 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130002922 dimer interface [polypeptide binding]; other site 610130002923 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130002924 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 610130002925 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 610130002926 active site turn [active] 610130002927 phosphorylation site [posttranslational modification] 610130002928 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130002929 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130002930 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 610130002931 putative active site [active] 610130002932 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130002933 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130002934 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 610130002935 putative active site [active] 610130002936 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 610130002937 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 610130002938 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 610130002939 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 610130002940 Walker A/P-loop; other site 610130002941 ATP binding site [chemical binding]; other site 610130002942 Q-loop/lid; other site 610130002943 ABC transporter signature motif; other site 610130002944 Walker B; other site 610130002945 D-loop; other site 610130002946 H-loop/switch region; other site 610130002947 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 610130002948 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 610130002949 Walker A/P-loop; other site 610130002950 ATP binding site [chemical binding]; other site 610130002951 Q-loop/lid; other site 610130002952 ABC transporter signature motif; other site 610130002953 Walker B; other site 610130002954 D-loop; other site 610130002955 H-loop/switch region; other site 610130002956 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 610130002957 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 610130002958 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 610130002959 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 610130002960 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 610130002961 active site 610130002962 HIGH motif; other site 610130002963 nucleotide binding site [chemical binding]; other site 610130002964 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 610130002965 active site 610130002966 KMSKS motif; other site 610130002967 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 610130002968 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 610130002969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130002970 DNA-binding site [nucleotide binding]; DNA binding site 610130002971 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 610130002972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130002973 homodimer interface [polypeptide binding]; other site 610130002974 catalytic residue [active] 610130002975 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130002976 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130002977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130002978 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 610130002979 Cupin domain; Region: Cupin_2; pfam07883 610130002980 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130002981 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130002982 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130002983 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 610130002984 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130002985 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130002986 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 610130002987 dimer interface [polypeptide binding]; other site 610130002988 conserved gate region; other site 610130002989 putative PBP binding loops; other site 610130002990 ABC-ATPase subunit interface; other site 610130002991 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130002992 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 610130002993 dimer interface [polypeptide binding]; other site 610130002994 conserved gate region; other site 610130002995 putative PBP binding loops; other site 610130002996 ABC-ATPase subunit interface; other site 610130002997 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 610130002998 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130002999 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130003000 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 610130003001 active site 610130003002 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 610130003003 N- and C-terminal domain interface [polypeptide binding]; other site 610130003004 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 610130003005 active site 610130003006 putative catalytic site [active] 610130003007 metal binding site [ion binding]; metal-binding site 610130003008 ATP binding site [chemical binding]; other site 610130003009 carbohydrate binding site [chemical binding]; other site 610130003010 L-rhamnose isomerase; Provisional; Region: PRK01076 610130003011 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 610130003012 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 610130003013 intersubunit interface [polypeptide binding]; other site 610130003014 active site 610130003015 Zn2+ binding site [ion binding]; other site 610130003016 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 610130003017 oligomerisation interface [polypeptide binding]; other site 610130003018 mobile loop; other site 610130003019 roof hairpin; other site 610130003020 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 610130003021 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 610130003022 ring oligomerisation interface [polypeptide binding]; other site 610130003023 ATP/Mg binding site [chemical binding]; other site 610130003024 stacking interactions; other site 610130003025 hinge regions; other site 610130003026 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 610130003027 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 610130003028 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 610130003029 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 610130003030 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 610130003031 active site 610130003032 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 610130003033 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 610130003034 Uncharacterized conserved protein [Function unknown]; Region: COG1284 610130003035 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 610130003036 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 610130003037 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130003038 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 610130003039 FMN-binding domain; Region: FMN_bind; cl01081 610130003040 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 610130003041 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 610130003042 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 610130003043 Part of AAA domain; Region: AAA_19; pfam13245 610130003044 Family description; Region: UvrD_C_2; pfam13538 610130003045 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 610130003046 selenophosphate synthetase; Provisional; Region: PRK00943 610130003047 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 610130003048 dimerization interface [polypeptide binding]; other site 610130003049 putative ATP binding site [chemical binding]; other site 610130003050 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 610130003051 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 610130003052 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130003053 catalytic residue [active] 610130003054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130003055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130003056 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 610130003057 putative dimerization interface [polypeptide binding]; other site 610130003058 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 610130003059 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 610130003060 guanine deaminase; Region: guan_deamin; TIGR02967 610130003061 active site 610130003062 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 610130003063 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 610130003064 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 610130003065 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 610130003066 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 610130003067 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 610130003068 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 610130003069 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 610130003070 TspO/MBR family; Region: TspO_MBR; pfam03073 610130003071 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130003072 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130003073 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130003074 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130003075 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 610130003076 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 610130003077 xanthine permease; Region: pbuX; TIGR03173 610130003078 carbamate kinase; Reviewed; Region: PRK12686 610130003079 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 610130003080 putative substrate binding site [chemical binding]; other site 610130003081 nucleotide binding site [chemical binding]; other site 610130003082 nucleotide binding site [chemical binding]; other site 610130003083 homodimer interface [polypeptide binding]; other site 610130003084 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 610130003085 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 610130003086 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 610130003087 peptidase; Reviewed; Region: PRK13004 610130003088 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 610130003089 putative metal binding site [ion binding]; other site 610130003090 putative dimer interface [polypeptide binding]; other site 610130003091 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 610130003092 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 610130003093 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130003094 catalytic residue [active] 610130003095 YheO-like PAS domain; Region: PAS_6; pfam08348 610130003096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 610130003097 HTH domain; Region: HTH_22; pfam13309 610130003098 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 610130003099 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 610130003100 active site 610130003101 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 610130003102 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130003103 phenylhydantoinase; Validated; Region: PRK08323 610130003104 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 610130003105 tetramer interface [polypeptide binding]; other site 610130003106 active site 610130003107 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 610130003108 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 610130003109 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 610130003110 putative MPT binding site; other site 610130003111 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 610130003112 trimer interface [polypeptide binding]; other site 610130003113 dimer interface [polypeptide binding]; other site 610130003114 putative active site [active] 610130003115 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 610130003116 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 610130003117 FeS/SAM binding site; other site 610130003118 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 610130003119 MOSC domain; Region: MOSC; pfam03473 610130003120 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 610130003121 MPT binding site; other site 610130003122 trimer interface [polypeptide binding]; other site 610130003123 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 610130003124 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 610130003125 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 610130003126 Ligand binding site; other site 610130003127 metal-binding site 610130003128 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 610130003129 PAS domain S-box; Region: sensory_box; TIGR00229 610130003130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130003131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130003132 metal binding site [ion binding]; metal-binding site 610130003133 active site 610130003134 I-site; other site 610130003135 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130003136 Zn2+ binding site [ion binding]; other site 610130003137 Mg2+ binding site [ion binding]; other site 610130003138 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 610130003139 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 610130003140 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 610130003141 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 610130003142 gating phenylalanine in ion channel; other site 610130003143 TfoX C-terminal domain; Region: TfoX_C; pfam04994 610130003144 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130003145 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130003146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130003147 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130003148 Major Facilitator Superfamily; Region: MFS_1; pfam07690 610130003149 putative substrate translocation pore; other site 610130003150 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 610130003151 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 610130003152 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 610130003153 minor groove reading motif; other site 610130003154 helix-hairpin-helix signature motif; other site 610130003155 substrate binding pocket [chemical binding]; other site 610130003156 active site 610130003157 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 610130003158 Tubby C 2; Region: Tub_2; cl02043 610130003159 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130003160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130003161 Walker A/P-loop; other site 610130003162 ATP binding site [chemical binding]; other site 610130003163 Q-loop/lid; other site 610130003164 ABC transporter signature motif; other site 610130003165 Walker B; other site 610130003166 D-loop; other site 610130003167 H-loop/switch region; other site 610130003168 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 610130003169 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 610130003170 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 610130003171 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 610130003172 AzlC protein; Region: AzlC; pfam03591 610130003173 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 610130003174 putative active site [active] 610130003175 nucleotide binding site [chemical binding]; other site 610130003176 nudix motif; other site 610130003177 putative metal binding site [ion binding]; other site 610130003178 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 610130003179 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 610130003180 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 610130003181 Walker A/P-loop; other site 610130003182 ATP binding site [chemical binding]; other site 610130003183 Q-loop/lid; other site 610130003184 ABC transporter signature motif; other site 610130003185 Walker B; other site 610130003186 D-loop; other site 610130003187 H-loop/switch region; other site 610130003188 Predicted transcriptional regulators [Transcription]; Region: COG1725 610130003189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130003190 DNA-binding site [nucleotide binding]; DNA binding site 610130003191 MutS domain III; Region: MutS_III; pfam05192 610130003192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130003193 Walker A/P-loop; other site 610130003194 ATP binding site [chemical binding]; other site 610130003195 Q-loop/lid; other site 610130003196 ABC transporter signature motif; other site 610130003197 Walker B; other site 610130003198 D-loop; other site 610130003199 H-loop/switch region; other site 610130003200 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 610130003201 Ferritin-like domain; Region: Ferritin; pfam00210 610130003202 dinuclear metal binding motif [ion binding]; other site 610130003203 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 610130003204 nudix motif; other site 610130003205 Protein of unknown function (DUF970); Region: DUF970; cl17525 610130003206 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 610130003207 active site 610130003208 catalytic motif [active] 610130003209 Zn binding site [ion binding]; other site 610130003210 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 610130003211 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 610130003212 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 610130003213 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 610130003214 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 610130003215 intersubunit interface [polypeptide binding]; other site 610130003216 active site 610130003217 catalytic residue [active] 610130003218 hypothetical protein; Provisional; Region: PRK13663 610130003219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 610130003220 methionine aminopeptidase; Provisional; Region: PRK12318 610130003221 SEC-C motif; Region: SEC-C; pfam02810 610130003222 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 610130003223 active site 610130003224 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 610130003225 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 610130003226 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 610130003227 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 610130003228 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 610130003229 GIY-YIG motif/motif A; other site 610130003230 active site 610130003231 catalytic site [active] 610130003232 putative DNA binding site [nucleotide binding]; other site 610130003233 metal binding site [ion binding]; metal-binding site 610130003234 UvrB/uvrC motif; Region: UVR; pfam02151 610130003235 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 610130003236 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 610130003237 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 610130003238 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 610130003239 Hpr binding site; other site 610130003240 active site 610130003241 homohexamer subunit interaction site [polypeptide binding]; other site 610130003242 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 610130003243 FAD binding domain; Region: FAD_binding_4; pfam01565 610130003244 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 610130003245 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 610130003246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 610130003247 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 610130003248 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 610130003249 dimerization domain swap beta strand [polypeptide binding]; other site 610130003250 regulatory protein interface [polypeptide binding]; other site 610130003251 active site 610130003252 regulatory phosphorylation site [posttranslational modification]; other site 610130003253 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 610130003254 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 610130003255 active site 610130003256 PHP Thumb interface [polypeptide binding]; other site 610130003257 metal binding site [ion binding]; metal-binding site 610130003258 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 610130003259 generic binding surface II; other site 610130003260 generic binding surface I; other site 610130003261 6-phosphofructokinase; Provisional; Region: PRK03202 610130003262 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 610130003263 active site 610130003264 ADP/pyrophosphate binding site [chemical binding]; other site 610130003265 dimerization interface [polypeptide binding]; other site 610130003266 allosteric effector site; other site 610130003267 fructose-1,6-bisphosphate binding site; other site 610130003268 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 610130003269 altronate oxidoreductase; Provisional; Region: PRK03643 610130003270 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 610130003271 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 610130003272 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 610130003273 galactarate dehydratase; Region: galactar-dH20; TIGR03248 610130003274 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 610130003275 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130003276 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130003277 DNA binding site [nucleotide binding] 610130003278 domain linker motif; other site 610130003279 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 610130003280 dimerization interface [polypeptide binding]; other site 610130003281 ligand binding site [chemical binding]; other site 610130003282 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 610130003283 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 610130003284 FMN binding site [chemical binding]; other site 610130003285 active site 610130003286 catalytic residues [active] 610130003287 substrate binding site [chemical binding]; other site 610130003288 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 610130003289 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 610130003290 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 610130003291 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 610130003292 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 610130003293 dimer interface [polypeptide binding]; other site 610130003294 putative anticodon binding site; other site 610130003295 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 610130003296 motif 1; other site 610130003297 active site 610130003298 motif 2; other site 610130003299 motif 3; other site 610130003300 integron integrase; Region: integrase_gron; TIGR02249 610130003301 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 610130003302 Int/Topo IB signature motif; other site 610130003303 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 610130003304 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 610130003305 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 610130003306 DNA binding site [nucleotide binding] 610130003307 AAA domain; Region: AAA_30; pfam13604 610130003308 Family description; Region: UvrD_C_2; pfam13538 610130003309 CHC2 zinc finger; Region: zf-CHC2; cl17510 610130003310 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 610130003311 active site 610130003312 metal binding site [ion binding]; metal-binding site 610130003313 YodL-like; Region: YodL; pfam14191 610130003314 PcfK-like protein; Region: PcfK; pfam14058 610130003315 PcfJ-like protein; Region: PcfJ; pfam14284 610130003316 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 610130003317 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; cl03295 610130003318 nucleotide binding pocket [chemical binding]; other site 610130003319 K-X-D-G motif; other site 610130003320 catalytic site [active] 610130003321 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 610130003322 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 610130003323 Dimer interface [polypeptide binding]; other site 610130003324 Domain of unknown function (DUF4120); Region: DUF4120; pfam13496 610130003325 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130003326 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 610130003327 non-specific DNA binding site [nucleotide binding]; other site 610130003328 salt bridge; other site 610130003329 sequence-specific DNA binding site [nucleotide binding]; other site 610130003330 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 610130003331 Mg binding site [ion binding]; other site 610130003332 nucleotide binding site [chemical binding]; other site 610130003333 putative protofilament interface [polypeptide binding]; other site 610130003334 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130003335 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 610130003336 non-specific DNA binding site [nucleotide binding]; other site 610130003337 salt bridge; other site 610130003338 sequence-specific DNA binding site [nucleotide binding]; other site 610130003339 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 610130003340 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 610130003341 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 610130003342 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130003343 ABC transporter; Region: ABC_tran_2; pfam12848 610130003344 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130003345 short chain dehydrogenase; Provisional; Region: PRK06172 610130003346 classical (c) SDRs; Region: SDR_c; cd05233 610130003347 NAD(P) binding site [chemical binding]; other site 610130003348 active site 610130003349 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 610130003350 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 610130003351 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 610130003352 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130003353 Major Facilitator Superfamily; Region: MFS_1; pfam07690 610130003354 putative substrate translocation pore; other site 610130003355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130003356 NmrA-like family; Region: NmrA; pfam05368 610130003357 NAD(P) binding site [chemical binding]; other site 610130003358 active site 610130003359 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 610130003360 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 610130003361 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 610130003362 active site 610130003363 multimer interface [polypeptide binding]; other site 610130003364 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 610130003365 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 610130003366 active site 610130003367 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 610130003368 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 610130003369 Potassium binding sites [ion binding]; other site 610130003370 Cesium cation binding sites [ion binding]; other site 610130003371 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 610130003372 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 610130003373 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 610130003374 homodimer interface [polypeptide binding]; other site 610130003375 NADP binding site [chemical binding]; other site 610130003376 substrate binding site [chemical binding]; other site 610130003377 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 610130003378 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 610130003379 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 610130003380 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 610130003381 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 610130003382 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 610130003383 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 610130003384 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 610130003385 DRTGG domain; Region: DRTGG; pfam07085 610130003386 Domain in cystathionine beta-synthase and other proteins; Region: CBS; smart00116 610130003387 DHHA2 domain; Region: DHHA2; pfam02833 610130003388 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 610130003389 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 610130003390 FAD binding pocket [chemical binding]; other site 610130003391 FAD binding motif [chemical binding]; other site 610130003392 phosphate binding motif [ion binding]; other site 610130003393 beta-alpha-beta structure motif; other site 610130003394 NAD binding pocket [chemical binding]; other site 610130003395 Iron coordination center [ion binding]; other site 610130003396 putative oxidoreductase; Provisional; Region: PRK12831 610130003397 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130003398 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130003399 Transcriptional regulators [Transcription]; Region: MarR; COG1846 610130003400 MarR family; Region: MarR_2; pfam12802 610130003401 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 610130003402 Transposase; Region: HTH_Tnp_1; pfam01527 610130003403 putative transposase OrfB; Reviewed; Region: PHA02517 610130003404 HTH-like domain; Region: HTH_21; pfam13276 610130003405 Integrase core domain; Region: rve; pfam00665 610130003406 Integrase core domain; Region: rve_3; pfam13683 610130003407 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 610130003408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130003409 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130003410 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130003411 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 610130003412 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130003413 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130003414 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 610130003415 active site 610130003416 Cupin domain; Region: Cupin_2; pfam07883 610130003417 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130003418 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 610130003419 MFS/sugar transport protein; Region: MFS_2; pfam13347 610130003420 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 610130003421 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 610130003422 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 610130003423 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130003424 MarR family; Region: MarR_2; pfam12802 610130003425 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 610130003426 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 610130003427 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 610130003428 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 610130003429 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 610130003430 E3 interaction surface; other site 610130003431 lipoyl attachment site [posttranslational modification]; other site 610130003432 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 610130003433 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130003434 Southampton virus-type processing peptidase; Region: Peptidase_C37; pfam05416 610130003435 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130003436 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130003437 OsmC-like protein; Region: OsmC; pfam02566 610130003438 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 610130003439 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 610130003440 active site residue [active] 610130003441 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 610130003442 active site residue [active] 610130003443 Uncharacterized conserved protein [Function unknown]; Region: COG0398 610130003444 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 610130003445 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 610130003446 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 610130003447 Cysteine-rich domain; Region: CCG; pfam02754 610130003448 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 610130003449 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 610130003450 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 610130003451 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 610130003452 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 610130003453 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 610130003454 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 610130003455 Probable Catalytic site; other site 610130003456 Phosphotransferase enzyme family; Region: APH; pfam01636 610130003457 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 610130003458 active site 610130003459 ATP binding site [chemical binding]; other site 610130003460 substrate binding site [chemical binding]; other site 610130003461 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 610130003462 active site residue [active] 610130003463 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 610130003464 active site residue [active] 610130003465 hypothetical protein; Provisional; Region: PRK11622 610130003466 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130003467 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 610130003468 dimer interface [polypeptide binding]; other site 610130003469 conserved gate region; other site 610130003470 putative PBP binding loops; other site 610130003471 ABC-ATPase subunit interface; other site 610130003472 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 610130003473 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 610130003474 dimer interface [polypeptide binding]; other site 610130003475 conserved gate region; other site 610130003476 putative PBP binding loops; other site 610130003477 ABC-ATPase subunit interface; other site 610130003478 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 610130003479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130003480 Walker A/P-loop; other site 610130003481 ATP binding site [chemical binding]; other site 610130003482 Q-loop/lid; other site 610130003483 ABC transporter signature motif; other site 610130003484 Walker B; other site 610130003485 D-loop; other site 610130003486 H-loop/switch region; other site 610130003487 Type II restriction enzyme MunI; Region: RestrictionMunI; pfam11407 610130003488 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 610130003489 non-specific DNA binding site [nucleotide binding]; other site 610130003490 salt bridge; other site 610130003491 sequence-specific DNA binding site [nucleotide binding]; other site 610130003492 MT-A70; Region: MT-A70; cl01947 610130003493 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 610130003494 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 610130003495 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 610130003496 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 610130003497 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130003498 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130003499 DNA binding site [nucleotide binding] 610130003500 domain linker motif; other site 610130003501 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 610130003502 dimerization interface [polypeptide binding]; other site 610130003503 ligand binding site [chemical binding]; other site 610130003504 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130003505 PBP superfamily domain; Region: PBP_like_2; cl17296 610130003506 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130003507 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 610130003508 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 610130003509 dimer interface [polypeptide binding]; other site 610130003510 putative PBP binding loops; other site 610130003511 ABC-ATPase subunit interface; other site 610130003512 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130003513 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 610130003514 dimer interface [polypeptide binding]; other site 610130003515 conserved gate region; other site 610130003516 putative PBP binding loops; other site 610130003517 ABC-ATPase subunit interface; other site 610130003518 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 610130003519 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 610130003520 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 610130003521 active site 610130003522 catalytic site [active] 610130003523 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 610130003524 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130003525 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 610130003526 active site 610130003527 phosphorylation site [posttranslational modification] 610130003528 intermolecular recognition site; other site 610130003529 dimerization interface [polypeptide binding]; other site 610130003530 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 610130003531 DNA binding site [nucleotide binding] 610130003532 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 610130003533 dimer interface [polypeptide binding]; other site 610130003534 phosphorylation site [posttranslational modification] 610130003535 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 610130003536 ATP binding site [chemical binding]; other site 610130003537 Mg2+ binding site [ion binding]; other site 610130003538 G-X-G motif; other site 610130003539 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 610130003540 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130003541 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130003542 DNA binding site [nucleotide binding] 610130003543 domain linker motif; other site 610130003544 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 610130003545 dimerization interface [polypeptide binding]; other site 610130003546 ligand binding site [chemical binding]; other site 610130003547 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 610130003548 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130003549 putative ligand binding site [chemical binding]; other site 610130003550 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130003551 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130003552 Walker A/P-loop; other site 610130003553 ATP binding site [chemical binding]; other site 610130003554 Q-loop/lid; other site 610130003555 ABC transporter signature motif; other site 610130003556 Walker B; other site 610130003557 D-loop; other site 610130003558 H-loop/switch region; other site 610130003559 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130003560 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130003561 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 610130003562 TM-ABC transporter signature motif; other site 610130003563 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 610130003564 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 610130003565 active site 610130003566 catalytic tetrad [active] 610130003567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130003568 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130003569 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 610130003570 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 610130003571 transcriptional antiterminator BglG; Provisional; Region: PRK09772 610130003572 CAT RNA binding domain; Region: CAT_RBD; smart01061 610130003573 PRD domain; Region: PRD; pfam00874 610130003574 PRD domain; Region: PRD; pfam00874 610130003575 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 610130003576 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 610130003577 active site turn [active] 610130003578 phosphorylation site [posttranslational modification] 610130003579 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130003580 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 610130003581 HPr interaction site; other site 610130003582 glycerol kinase (GK) interaction site [polypeptide binding]; other site 610130003583 active site 610130003584 phosphorylation site [posttranslational modification] 610130003585 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 610130003586 beta-galactosidase; Region: BGL; TIGR03356 610130003587 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 610130003588 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 610130003589 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 610130003590 active pocket/dimerization site; other site 610130003591 active site 610130003592 phosphorylation site [posttranslational modification] 610130003593 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; cd00001 610130003594 active site 610130003595 phosphorylation site [posttranslational modification] 610130003596 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130003597 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130003598 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 610130003599 putative active site [active] 610130003600 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: PRK12570 610130003601 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 610130003602 putative active site [active] 610130003603 Beta-lactamase; Region: Beta-lactamase; pfam00144 610130003604 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 610130003605 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 610130003606 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130003607 Zn2+ binding site [ion binding]; other site 610130003608 Mg2+ binding site [ion binding]; other site 610130003609 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 610130003610 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 610130003611 homodimer interface [polypeptide binding]; other site 610130003612 substrate-cofactor binding pocket; other site 610130003613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130003614 catalytic residue [active] 610130003615 Transcriptional regulators [Transcription]; Region: FadR; COG2186 610130003616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130003617 DNA-binding site [nucleotide binding]; DNA binding site 610130003618 FCD domain; Region: FCD; pfam07729 610130003619 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 610130003620 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 610130003621 homodimer interface [polypeptide binding]; other site 610130003622 substrate-cofactor binding pocket; other site 610130003623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130003624 catalytic residue [active] 610130003625 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130003626 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130003627 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130003628 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 610130003629 dimer interface [polypeptide binding]; other site 610130003630 conserved gate region; other site 610130003631 putative PBP binding loops; other site 610130003632 ABC-ATPase subunit interface; other site 610130003633 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130003634 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 610130003635 dimer interface [polypeptide binding]; other site 610130003636 conserved gate region; other site 610130003637 putative PBP binding loops; other site 610130003638 ABC-ATPase subunit interface; other site 610130003639 Transposase IS200 like; Region: Y1_Tnp; pfam01797 610130003640 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130003641 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 610130003642 hypothetical protein; Provisional; Region: PRK11171 610130003643 Cupin domain; Region: Cupin_2; pfam07883 610130003644 Predicted permeases [General function prediction only]; Region: COG0679 610130003645 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 610130003646 active site 610130003647 P-loop; other site 610130003648 phosphorylation site [posttranslational modification] 610130003649 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 610130003650 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 610130003651 intersubunit interface [polypeptide binding]; other site 610130003652 active site 610130003653 zinc binding site [ion binding]; other site 610130003654 Na+ binding site [ion binding]; other site 610130003655 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 610130003656 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130003657 Mga helix-turn-helix domain; Region: Mga; pfam05043 610130003658 PRD domain; Region: PRD; pfam00874 610130003659 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 610130003660 active site 610130003661 phosphorylation site [posttranslational modification] 610130003662 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 610130003663 active site 610130003664 phosphorylation site [posttranslational modification] 610130003665 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 610130003666 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 610130003667 active site 610130003668 catalytic tetrad [active] 610130003669 hypothetical protein; Provisional; Region: PRK09273 610130003670 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 610130003671 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 610130003672 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 610130003673 dimerization domain swap beta strand [polypeptide binding]; other site 610130003674 regulatory protein interface [polypeptide binding]; other site 610130003675 active site 610130003676 regulatory phosphorylation site [posttranslational modification]; other site 610130003677 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 610130003678 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 610130003679 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 610130003680 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 610130003681 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 610130003682 HlyD family secretion protein; Region: HlyD_3; pfam13437 610130003683 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 610130003684 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 610130003685 Walker A/P-loop; other site 610130003686 ATP binding site [chemical binding]; other site 610130003687 Q-loop/lid; other site 610130003688 ABC transporter signature motif; other site 610130003689 Walker B; other site 610130003690 D-loop; other site 610130003691 H-loop/switch region; other site 610130003692 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 610130003693 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 610130003694 FtsX-like permease family; Region: FtsX; pfam02687 610130003695 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 610130003696 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 610130003697 FtsX-like permease family; Region: FtsX; pfam02687 610130003698 Uncharacterized conserved protein [Function unknown]; Region: COG1624 610130003699 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 610130003700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 610130003701 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 610130003702 dimerization domain swap beta strand [polypeptide binding]; other site 610130003703 regulatory protein interface [polypeptide binding]; other site 610130003704 active site 610130003705 regulatory phosphorylation site [posttranslational modification]; other site 610130003706 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 610130003707 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 610130003708 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 610130003709 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 610130003710 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130003711 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130003712 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 610130003713 putative active site [active] 610130003714 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130003715 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 610130003716 NAD binding site [chemical binding]; other site 610130003717 sugar binding site [chemical binding]; other site 610130003718 divalent metal binding site [ion binding]; other site 610130003719 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130003720 dimer interface [polypeptide binding]; other site 610130003721 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130003722 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 610130003723 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 610130003724 active site turn [active] 610130003725 phosphorylation site [posttranslational modification] 610130003726 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 610130003727 HPr interaction site; other site 610130003728 glycerol kinase (GK) interaction site [polypeptide binding]; other site 610130003729 active site 610130003730 phosphorylation site [posttranslational modification] 610130003731 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 610130003732 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130003733 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130003734 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 610130003735 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 610130003736 ATP-grasp domain; Region: ATP-grasp_4; cl17255 610130003737 diaminopimelate epimerase; Provisional; Region: PRK13577 610130003738 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 610130003739 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 610130003740 PAS fold; Region: PAS_3; pfam08447 610130003741 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130003742 metal binding site [ion binding]; metal-binding site 610130003743 active site 610130003744 I-site; other site 610130003745 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 610130003746 PAS fold; Region: PAS_3; pfam08447 610130003747 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 610130003748 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 610130003749 putative active site [active] 610130003750 heme pocket [chemical binding]; other site 610130003751 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 610130003752 putative active site [active] 610130003753 heme pocket [chemical binding]; other site 610130003754 aspartate aminotransferase; Provisional; Region: PRK06836 610130003755 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 610130003756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130003757 homodimer interface [polypeptide binding]; other site 610130003758 catalytic residue [active] 610130003759 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 610130003760 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 610130003761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130003762 homodimer interface [polypeptide binding]; other site 610130003763 catalytic residue [active] 610130003764 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 610130003765 Domain of unknown function DUF20; Region: UPF0118; pfam01594 610130003766 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 610130003767 active site 610130003768 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 610130003769 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 610130003770 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130003771 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 610130003772 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 610130003773 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 610130003774 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 610130003775 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 610130003776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130003777 Walker A/P-loop; other site 610130003778 ATP binding site [chemical binding]; other site 610130003779 Q-loop/lid; other site 610130003780 ABC transporter signature motif; other site 610130003781 Walker B; other site 610130003782 D-loop; other site 610130003783 H-loop/switch region; other site 610130003784 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 610130003785 dimerization interface [polypeptide binding]; other site 610130003786 putative DNA binding site [nucleotide binding]; other site 610130003787 putative Zn2+ binding site [ion binding]; other site 610130003788 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 610130003789 metal-binding site [ion binding] 610130003790 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 610130003791 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 610130003792 Soluble P-type ATPase [General function prediction only]; Region: COG4087 610130003793 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 610130003794 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 610130003795 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 610130003796 ANTAR domain; Region: ANTAR; pfam03861 610130003797 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 610130003798 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 610130003799 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 610130003800 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 610130003801 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 610130003802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130003803 homodimer interface [polypeptide binding]; other site 610130003804 catalytic residue [active] 610130003805 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 610130003806 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 610130003807 putative DNA binding site [nucleotide binding]; other site 610130003808 putative Zn2+ binding site [ion binding]; other site 610130003809 AsnC family; Region: AsnC_trans_reg; pfam01037 610130003810 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 610130003811 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 610130003812 active site 610130003813 metal binding site [ion binding]; metal-binding site 610130003814 Sporulation related domain; Region: SPOR; pfam05036 610130003815 Domain of unknown function (DUF368); Region: DUF368; pfam04018 610130003816 Stage II sporulation protein; Region: SpoIID; pfam08486 610130003817 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 610130003818 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 610130003819 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 610130003820 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 610130003821 catalytic site [active] 610130003822 subunit interface [polypeptide binding]; other site 610130003823 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 610130003824 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 610130003825 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 610130003826 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 610130003827 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 610130003828 ATP-grasp domain; Region: ATP-grasp_4; cl17255 610130003829 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 610130003830 IMP binding site; other site 610130003831 dimer interface [polypeptide binding]; other site 610130003832 interdomain contacts; other site 610130003833 partial ornithine binding site; other site 610130003834 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 610130003835 dimanganese center [ion binding]; other site 610130003836 CotJB protein; Region: CotJB; pfam12652 610130003837 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 610130003838 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 610130003839 Uncharacterized conserved protein [Function unknown]; Region: COG1432 610130003840 putative metal binding site [ion binding]; other site 610130003841 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 610130003842 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 610130003843 Predicted membrane protein [Function unknown]; Region: COG2855 610130003844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130003845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130003846 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 610130003847 putative dimerization interface [polypeptide binding]; other site 610130003848 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 610130003849 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130003850 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 610130003851 dimer interface [polypeptide binding]; other site 610130003852 conserved gate region; other site 610130003853 putative PBP binding loops; other site 610130003854 ABC-ATPase subunit interface; other site 610130003855 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130003856 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 610130003857 dimer interface [polypeptide binding]; other site 610130003858 conserved gate region; other site 610130003859 putative PBP binding loops; other site 610130003860 ABC-ATPase subunit interface; other site 610130003861 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 610130003862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130003863 DNA-binding site [nucleotide binding]; DNA binding site 610130003864 FCD domain; Region: FCD; pfam07729 610130003865 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 610130003866 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 610130003867 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 610130003868 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 610130003869 homotrimer interaction site [polypeptide binding]; other site 610130003870 zinc binding site [ion binding]; other site 610130003871 CDP-binding sites; other site 610130003872 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 610130003873 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 610130003874 active site 610130003875 HIGH motif; other site 610130003876 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 610130003877 KMSKS motif; other site 610130003878 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 610130003879 tRNA binding surface [nucleotide binding]; other site 610130003880 anticodon binding site; other site 610130003881 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 610130003882 active site 610130003883 metal binding site [ion binding]; metal-binding site 610130003884 dimerization interface [polypeptide binding]; other site 610130003885 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 610130003886 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 610130003887 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 610130003888 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 610130003889 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 610130003890 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 610130003891 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 610130003892 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 610130003893 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130003894 Walker A motif; other site 610130003895 ATP binding site [chemical binding]; other site 610130003896 Walker B motif; other site 610130003897 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 610130003898 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 610130003899 tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130003900 NAD binding site [chemical binding]; other site 610130003901 dimer interface [polypeptide binding]; other site 610130003902 substrate binding site [chemical binding]; other site 610130003903 Transglycosylase; Region: Transgly; pfam00912 610130003904 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 610130003905 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 610130003906 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 610130003907 MgtE intracellular N domain; Region: MgtE_N; smart00924 610130003908 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 610130003909 Divalent cation transporter; Region: MgtE; cl00786 610130003910 Divalent cation transporter; Region: MgtE; pfam01769 610130003911 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 610130003912 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 610130003913 active site 610130003914 HIGH motif; other site 610130003915 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 610130003916 active site 610130003917 KMSKS motif; other site 610130003918 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 610130003919 Part of AAA domain; Region: AAA_19; pfam13245 610130003920 Family description; Region: UvrD_C_2; pfam13538 610130003921 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 610130003922 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 610130003923 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 610130003924 non-specific DNA binding site [nucleotide binding]; other site 610130003925 salt bridge; other site 610130003926 sequence-specific DNA binding site [nucleotide binding]; other site 610130003927 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 610130003928 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 610130003929 CPxP motif; other site 610130003930 DsrE/DsrF-like family; Region: DrsE; cl00672 610130003931 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 610130003932 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 610130003933 S-adenosylmethionine binding site [chemical binding]; other site 610130003934 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 610130003935 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 610130003936 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 610130003937 active site 610130003938 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 610130003939 Uncharacterized conserved protein [Function unknown]; Region: COG1284 610130003940 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 610130003941 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 610130003942 DNA polymerase IV; Reviewed; Region: PRK03103 610130003943 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 610130003944 active site 610130003945 DNA binding site [nucleotide binding] 610130003946 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 610130003947 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 610130003948 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 610130003949 Uncharacterized conserved protein [Function unknown]; Region: COG1284 610130003950 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 610130003951 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 610130003952 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 610130003953 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 610130003954 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 610130003955 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 610130003956 carboxyltransferase (CT) interaction site; other site 610130003957 biotinylation site [posttranslational modification]; other site 610130003958 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 610130003959 oxaloacetate decarboxylase; Provisional; Region: PRK12331 610130003960 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 610130003961 active site 610130003962 catalytic residues [active] 610130003963 metal binding site [ion binding]; metal-binding site 610130003964 homodimer binding site [polypeptide binding]; other site 610130003965 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130003966 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 610130003967 Dockerin type I repeat; Region: Dockerin_1; pfam00404 610130003968 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 610130003969 dockerin binding interface; other site 610130003970 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 610130003971 Predicted transcriptional regulators [Transcription]; Region: COG1725 610130003972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130003973 DNA-binding site [nucleotide binding]; DNA binding site 610130003974 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 610130003975 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 610130003976 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 610130003977 ADP binding site [chemical binding]; other site 610130003978 phosphagen binding site; other site 610130003979 substrate specificity loop; other site 610130003980 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 610130003981 Clp amino terminal domain; Region: Clp_N; pfam02861 610130003982 Clp amino terminal domain; Region: Clp_N; pfam02861 610130003983 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 610130003984 Walker A motif; other site 610130003985 ATP binding site [chemical binding]; other site 610130003986 Walker B motif; other site 610130003987 arginine finger; other site 610130003988 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 610130003989 Walker A motif; other site 610130003990 ATP binding site [chemical binding]; other site 610130003991 Walker B motif; other site 610130003992 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 610130003993 DNA repair protein RadA; Provisional; Region: PRK11823 610130003994 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 610130003995 Walker A motif/ATP binding site; other site 610130003996 ATP binding site [chemical binding]; other site 610130003997 Walker B motif; other site 610130003998 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 610130003999 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130004000 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130004001 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 610130004002 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 610130004003 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 610130004004 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 610130004005 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 610130004006 regulatory phosphorylation site [posttranslational modification]; other site 610130004007 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 610130004008 DEAD/DEAH box helicase; Region: DEAD; pfam00270 610130004009 ATP binding site [chemical binding]; other site 610130004010 DEAD_2; Region: DEAD_2; pfam06733 610130004011 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 610130004012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130004013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130004014 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 610130004015 dimerization interface [polypeptide binding]; other site 610130004016 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130004017 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130004018 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 610130004019 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 610130004020 catalytic core [active] 610130004021 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 610130004022 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 610130004023 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 610130004024 dimerization interface [polypeptide binding]; other site 610130004025 ATP binding site [chemical binding]; other site 610130004026 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 610130004027 dimerization interface [polypeptide binding]; other site 610130004028 ATP binding site [chemical binding]; other site 610130004029 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 610130004030 putative active site [active] 610130004031 catalytic triad [active] 610130004032 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 610130004033 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130004034 DNA binding residues [nucleotide binding] 610130004035 dimer interface [polypeptide binding]; other site 610130004036 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 610130004037 iron binding site [ion binding]; other site 610130004038 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 610130004039 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130004040 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 610130004041 active site 610130004042 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 610130004043 dimer interface [polypeptide binding]; other site 610130004044 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 610130004045 Ligand Binding Site [chemical binding]; other site 610130004046 Molecular Tunnel; other site 610130004047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130004048 AAA domain; Region: AAA_21; pfam13304 610130004049 Walker A/P-loop; other site 610130004050 ATP binding site [chemical binding]; other site 610130004051 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130004052 ABC transporter signature motif; other site 610130004053 Walker B; other site 610130004054 D-loop; other site 610130004055 H-loop/switch region; other site 610130004056 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 610130004057 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 610130004058 active site 610130004059 substrate binding site [chemical binding]; other site 610130004060 trimer interface [polypeptide binding]; other site 610130004061 CoA binding site [chemical binding]; other site 610130004062 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 610130004063 N- and C-terminal domain interface [polypeptide binding]; other site 610130004064 D-xylulose kinase; Region: XylB; TIGR01312 610130004065 active site 610130004066 MgATP binding site [chemical binding]; other site 610130004067 catalytic site [active] 610130004068 metal binding site [ion binding]; metal-binding site 610130004069 xylulose binding site [chemical binding]; other site 610130004070 homodimer interface [polypeptide binding]; other site 610130004071 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 610130004072 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 610130004073 hexamer (dimer of trimers) interface [polypeptide binding]; other site 610130004074 trimer interface [polypeptide binding]; other site 610130004075 substrate binding site [chemical binding]; other site 610130004076 Mn binding site [ion binding]; other site 610130004077 Predicted membrane protein [Function unknown]; Region: COG3601 610130004078 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 610130004079 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 610130004080 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 610130004081 active site 610130004082 DNA binding site [nucleotide binding] 610130004083 Int/Topo IB signature motif; other site 610130004084 Helix-turn-helix domain; Region: HTH_17; pfam12728 610130004085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130004086 AAA domain; Region: AAA_23; pfam13476 610130004087 Walker A/P-loop; other site 610130004088 ATP binding site [chemical binding]; other site 610130004089 AAA domain; Region: AAA_24; pfam13479 610130004090 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130004091 Walker A motif; other site 610130004092 ATP binding site [chemical binding]; other site 610130004093 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 610130004094 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 610130004095 ATP binding site [chemical binding]; other site 610130004096 putative Mg++ binding site [ion binding]; other site 610130004097 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 610130004098 nucleotide binding region [chemical binding]; other site 610130004099 ATP-binding site [chemical binding]; other site 610130004100 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 610130004101 VirE N-terminal domain; Region: VirE_N; pfam08800 610130004102 AAA domain; Region: AAA_25; pfam13481 610130004103 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130004104 Walker A motif; other site 610130004105 ATP binding site [chemical binding]; other site 610130004106 Walker B motif; other site 610130004107 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 610130004108 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 610130004109 active site 610130004110 DNA-directed RNA polymerase subunit A' Region: RNA_pol_rpoA1; TIGR02390 610130004111 Domain of unknown function (DUF3825); Region: DUF3825; pfam12873 610130004112 Uncharacterized conserved protein [Function unknown]; Region: COG5484 610130004113 Homeodomain-like domain; Region: HTH_23; pfam13384 610130004114 Phage terminase large subunit; Region: Terminase_3; cl12054 610130004115 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 610130004116 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 610130004117 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 610130004118 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 610130004119 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 610130004120 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 610130004121 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 610130004122 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 610130004123 Phage XkdN-like protein; Region: XkdN; pfam08890 610130004124 tape measure domain; Region: tape_meas_nterm; TIGR02675 610130004125 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130004126 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 610130004127 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 610130004128 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 610130004129 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 610130004130 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 610130004131 Holin family; Region: Phage_holin_4; pfam05105 610130004132 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130004133 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130004134 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 610130004135 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 610130004136 active site 610130004137 DNA binding site [nucleotide binding] 610130004138 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 610130004139 DNA binding site [nucleotide binding] 610130004140 HicB family; Region: HicB; pfam05534 610130004141 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 610130004142 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 610130004143 non-specific DNA binding site [nucleotide binding]; other site 610130004144 salt bridge; other site 610130004145 sequence-specific DNA binding site [nucleotide binding]; other site 610130004146 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 610130004147 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130004148 active site 610130004149 catalytic triad [active] 610130004150 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 610130004151 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130004152 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130004153 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 610130004154 active site 610130004155 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 610130004156 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 610130004157 active site 610130004158 metal binding site [ion binding]; metal-binding site 610130004159 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130004160 active site 610130004161 catalytic triad [active] 610130004162 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 610130004163 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130004164 putative ligand binding site [chemical binding]; other site 610130004165 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130004166 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 610130004167 active site 610130004168 catalytic triad [active] 610130004169 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 610130004170 Rubrerythrin [Energy production and conversion]; Region: COG1592 610130004171 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 610130004172 binuclear metal center [ion binding]; other site 610130004173 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 610130004174 iron binding site [ion binding]; other site 610130004175 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 610130004176 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 610130004177 active site 610130004178 metal binding site [ion binding]; metal-binding site 610130004179 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 610130004180 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130004181 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 610130004182 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 610130004183 DNA binding residues [nucleotide binding] 610130004184 dimer interface [polypeptide binding]; other site 610130004185 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 610130004186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130004187 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130004188 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 610130004189 putative FMN binding site [chemical binding]; other site 610130004190 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 610130004191 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 610130004192 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 610130004193 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 610130004194 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 610130004195 AAA domain; Region: AAA_21; pfam13304 610130004196 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130004197 H+ Antiporter protein; Region: 2A0121; TIGR00900 610130004198 putative substrate translocation pore; other site 610130004199 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 610130004200 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 610130004201 DNA binding residues [nucleotide binding] 610130004202 drug binding residues [chemical binding]; other site 610130004203 dimer interface [polypeptide binding]; other site 610130004204 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 610130004205 Transcriptional regulators [Transcription]; Region: FadR; COG2186 610130004206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130004207 DNA-binding site [nucleotide binding]; DNA binding site 610130004208 FCD domain; Region: FCD; pfam07729 610130004209 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 610130004210 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 610130004211 4Fe-4S binding domain; Region: Fer4; pfam00037 610130004212 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 610130004213 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130004214 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 610130004215 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 610130004216 A2L zinc ribbon domain; Region: A2L_zn_ribbon; pfam08792 610130004217 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130004218 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 610130004219 Uncharacterized conserved protein [Function unknown]; Region: COG0398 610130004220 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 610130004221 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130004222 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 610130004223 putative ADP-binding pocket [chemical binding]; other site 610130004224 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 610130004225 Y-family of DNA polymerases; Region: PolY; cl12025 610130004226 active site 610130004227 DNA binding site [nucleotide binding] 610130004228 YolD-like protein; Region: YolD; pfam08863 610130004229 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130004230 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 610130004231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 610130004232 Histidine kinase; Region: His_kinase; pfam06580 610130004233 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 610130004234 ATP binding site [chemical binding]; other site 610130004235 Mg2+ binding site [ion binding]; other site 610130004236 G-X-G motif; other site 610130004237 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130004238 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 610130004239 active site 610130004240 phosphorylation site [posttranslational modification] 610130004241 intermolecular recognition site; other site 610130004242 dimerization interface [polypeptide binding]; other site 610130004243 LytTr DNA-binding domain; Region: LytTR; smart00850 610130004244 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 610130004245 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 610130004246 N- and C-terminal domain interface [polypeptide binding]; other site 610130004247 putative active site [active] 610130004248 MgATP binding site [chemical binding]; other site 610130004249 catalytic site [active] 610130004250 metal binding site [ion binding]; metal-binding site 610130004251 putative xylulose binding site [chemical binding]; other site 610130004252 putative homodimer interface [polypeptide binding]; other site 610130004253 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 610130004254 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 610130004255 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 610130004256 active site 610130004257 BtpA family; Region: BtpA; cl00440 610130004258 fructoselysine 6-kinase; Provisional; Region: PRK09813 610130004259 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130004260 substrate binding site [chemical binding]; other site 610130004261 ATP binding site [chemical binding]; other site 610130004262 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 610130004263 active site 610130004264 catalytic triad [active] 610130004265 oxyanion hole [active] 610130004266 fructoselysine 3-epimerase; Provisional; Region: PRK09856 610130004267 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 610130004268 AP (apurinic/apyrimidinic) site pocket; other site 610130004269 DNA interaction; other site 610130004270 Metal-binding active site; metal-binding site 610130004271 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 610130004272 active site 610130004273 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 610130004274 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 610130004275 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130004276 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130004277 DNA-binding site [nucleotide binding]; DNA binding site 610130004278 UTRA domain; Region: UTRA; pfam07702 610130004279 fructoselysine 6-kinase; Provisional; Region: PRK09813 610130004280 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130004281 substrate binding site [chemical binding]; other site 610130004282 ATP binding site [chemical binding]; other site 610130004283 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130004284 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130004285 DNA-binding site [nucleotide binding]; DNA binding site 610130004286 UTRA domain; Region: UTRA; pfam07702 610130004287 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130004288 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 610130004289 putative active site [active] 610130004290 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 610130004291 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 610130004292 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 610130004293 Metal-binding active site; metal-binding site 610130004294 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130004295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130004296 DNA-binding site [nucleotide binding]; DNA binding site 610130004297 UTRA domain; Region: UTRA; pfam07702 610130004298 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130004299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130004300 DNA-binding site [nucleotide binding]; DNA binding site 610130004301 UTRA domain; Region: UTRA; pfam07702 610130004302 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 610130004303 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 610130004304 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 610130004305 active pocket/dimerization site; other site 610130004306 active site 610130004307 phosphorylation site [posttranslational modification] 610130004308 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 610130004309 active site 610130004310 phosphorylation site [posttranslational modification] 610130004311 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 610130004312 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 610130004313 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130004314 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 610130004315 putative active site [active] 610130004316 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 610130004317 dimer interface [polypeptide binding]; other site 610130004318 active site 610130004319 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 610130004320 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 610130004321 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 610130004322 active site 610130004323 intersubunit interactions; other site 610130004324 catalytic residue [active] 610130004325 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 610130004326 homotrimer interaction site [polypeptide binding]; other site 610130004327 putative active site [active] 610130004328 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 610130004329 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130004330 Protein of unknown function (DUF521); Region: DUF521; pfam04412 610130004331 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 610130004332 substrate binding site [chemical binding]; other site 610130004333 ligand binding site [chemical binding]; other site 610130004334 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 610130004335 substrate binding site [chemical binding]; other site 610130004336 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 610130004337 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 610130004338 phosphate binding site [ion binding]; other site 610130004339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130004340 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130004341 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 610130004342 putative hexamer interface [polypeptide binding]; other site 610130004343 putative hexagonal pore; other site 610130004344 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 610130004345 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 610130004346 G1 box; other site 610130004347 GTP/Mg2+ binding site [chemical binding]; other site 610130004348 G2 box; other site 610130004349 Switch I region; other site 610130004350 G3 box; other site 610130004351 Switch II region; other site 610130004352 G4 box; other site 610130004353 G5 box; other site 610130004354 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 610130004355 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 610130004356 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 610130004357 putative active site [active] 610130004358 metal binding site [ion binding]; metal-binding site 610130004359 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 610130004360 putative hexamer interface [polypeptide binding]; other site 610130004361 putative hexagonal pore; other site 610130004362 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 610130004363 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 610130004364 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 610130004365 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 610130004366 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 610130004367 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 610130004368 putative hexamer interface [polypeptide binding]; other site 610130004369 putative hexagonal pore; other site 610130004370 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 610130004371 putative hexamer interface [polypeptide binding]; other site 610130004372 putative hexagonal pore; other site 610130004373 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130004374 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 610130004375 Hexamer interface [polypeptide binding]; other site 610130004376 Hexagonal pore residue; other site 610130004377 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 610130004378 putative catalytic cysteine [active] 610130004379 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130004380 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 610130004381 Hexamer interface [polypeptide binding]; other site 610130004382 Putative hexagonal pore residue; other site 610130004383 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 610130004384 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 610130004385 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130004386 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130004387 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 610130004388 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 610130004389 Hexamer/Pentamer interface [polypeptide binding]; other site 610130004390 central pore; other site 610130004391 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 610130004392 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 610130004393 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 610130004394 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 610130004395 dimerization domain swap beta strand [polypeptide binding]; other site 610130004396 regulatory protein interface [polypeptide binding]; other site 610130004397 active site 610130004398 regulatory phosphorylation site [posttranslational modification]; other site 610130004399 Uncharacterized conserved protein [Function unknown]; Region: COG3589 610130004400 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 610130004401 HTH domain; Region: HTH_11; pfam08279 610130004402 Mga helix-turn-helix domain; Region: Mga; pfam05043 610130004403 PRD domain; Region: PRD; pfam00874 610130004404 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 610130004405 active site 610130004406 P-loop; other site 610130004407 phosphorylation site [posttranslational modification] 610130004408 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 610130004409 active site 610130004410 phosphorylation site [posttranslational modification] 610130004411 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 610130004412 methionine cluster; other site 610130004413 active site 610130004414 phosphorylation site [posttranslational modification] 610130004415 metal binding site [ion binding]; metal-binding site 610130004416 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 610130004417 active site 610130004418 P-loop; other site 610130004419 phosphorylation site [posttranslational modification] 610130004420 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 610130004421 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 610130004422 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 610130004423 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 610130004424 active site 610130004425 dimer interface [polypeptide binding]; other site 610130004426 catalytic nucleophile [active] 610130004427 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 610130004428 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 610130004429 metal binding site [ion binding]; metal-binding site 610130004430 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 610130004431 Uncharacterized conserved protein [Function unknown]; Region: COG1284 610130004432 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 610130004433 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 610130004434 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 610130004435 CPxP motif; other site 610130004436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130004437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130004438 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 610130004439 dimerization interface [polypeptide binding]; other site 610130004440 Sulphur transport; Region: Sulf_transp; pfam04143 610130004441 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 610130004442 CPxP motif; other site 610130004443 Sulphur transport; Region: Sulf_transp; pfam04143 610130004444 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 610130004445 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130004446 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 610130004447 catalytic residues [active] 610130004448 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 610130004449 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 610130004450 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 610130004451 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 610130004452 lipoyl attachment site [posttranslational modification]; other site 610130004453 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 610130004454 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 610130004455 tetramer interface [polypeptide binding]; other site 610130004456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130004457 catalytic residue [active] 610130004458 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 610130004459 tetramer interface [polypeptide binding]; other site 610130004460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130004461 catalytic residue [active] 610130004462 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 610130004463 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 610130004464 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 610130004465 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 610130004466 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130004467 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130004468 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130004469 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130004470 putative efflux protein, MATE family; Region: matE; TIGR00797 610130004471 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130004472 MarR family; Region: MarR_2; pfam12802 610130004473 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130004474 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 610130004475 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 610130004476 dimerization interface [polypeptide binding]; other site 610130004477 Predicted transcriptional regulator [Transcription]; Region: COG4189 610130004478 putative DNA binding site [nucleotide binding]; other site 610130004479 putative Zn2+ binding site [ion binding]; other site 610130004480 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130004481 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130004482 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 610130004483 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 610130004484 dimer interface [polypeptide binding]; other site 610130004485 conserved gate region; other site 610130004486 putative PBP binding loops; other site 610130004487 ABC-ATPase subunit interface; other site 610130004488 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130004489 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 610130004490 dimer interface [polypeptide binding]; other site 610130004491 conserved gate region; other site 610130004492 putative PBP binding loops; other site 610130004493 ABC-ATPase subunit interface; other site 610130004494 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 610130004495 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 610130004496 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 610130004497 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 610130004498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130004499 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130004500 active site 610130004501 catalytic triad [active] 610130004502 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 610130004503 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 610130004504 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 610130004505 DNA-binding site [nucleotide binding]; DNA binding site 610130004506 RNA-binding motif; other site 610130004507 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 610130004508 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 610130004509 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 610130004510 putative ligand binding site [chemical binding]; other site 610130004511 putative NAD binding site [chemical binding]; other site 610130004512 catalytic site [active] 610130004513 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 610130004514 NMT1-like family; Region: NMT1_2; pfam13379 610130004515 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 610130004516 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 610130004517 active site 610130004518 motif I; other site 610130004519 motif II; other site 610130004520 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 610130004521 Trp repressor protein; Region: Trp_repressor; cl17266 610130004522 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 610130004523 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 610130004524 homotrimer interaction site [polypeptide binding]; other site 610130004525 putative active site [active] 610130004526 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 610130004527 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 610130004528 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 610130004529 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 610130004530 binding surface 610130004531 TPR motif; other site 610130004532 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 610130004533 binding surface 610130004534 TPR motif; other site 610130004535 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 610130004536 binding surface 610130004537 TPR motif; other site 610130004538 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 610130004539 anti sigma factor interaction site; other site 610130004540 regulatory phosphorylation site [posttranslational modification]; other site 610130004541 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 610130004542 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 610130004543 ATP binding site [chemical binding]; other site 610130004544 Mg2+ binding site [ion binding]; other site 610130004545 G-X-G motif; other site 610130004546 sporulation sigma factor SigF; Validated; Region: PRK05572 610130004547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130004548 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 610130004549 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 610130004550 DNA binding residues [nucleotide binding] 610130004551 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 610130004552 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 610130004553 SpoVA protein; Region: SpoVA; pfam03862 610130004554 stage V sporulation protein AD; Validated; Region: PRK08304 610130004555 stage V sporulation protein AD; Provisional; Region: PRK12404 610130004556 SpoVA protein; Region: SpoVA; pfam03862 610130004557 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 610130004558 Transglycosylase; Region: Transgly; pfam00912 610130004559 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 610130004560 Uncharacterized conserved protein [Function unknown]; Region: COG1739 610130004561 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 610130004562 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 610130004563 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 610130004564 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 610130004565 G1 box; other site 610130004566 putative GEF interaction site [polypeptide binding]; other site 610130004567 GTP/Mg2+ binding site [chemical binding]; other site 610130004568 Switch I region; other site 610130004569 G2 box; other site 610130004570 G3 box; other site 610130004571 Switch II region; other site 610130004572 G4 box; other site 610130004573 G5 box; other site 610130004574 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 610130004575 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 610130004576 single-stranded DNA-binding protein; Provisional; Region: PRK05813 610130004577 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 610130004578 dimer interface [polypeptide binding]; other site 610130004579 ssDNA binding site [nucleotide binding]; other site 610130004580 tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130004581 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130004582 Walker A motif; other site 610130004583 ATP binding site [chemical binding]; other site 610130004584 Walker B motif; other site 610130004585 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 610130004586 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 610130004587 dimer interface [polypeptide binding]; other site 610130004588 active site 610130004589 catalytic residue [active] 610130004590 dihydrodipicolinate reductase; Provisional; Region: PRK00048 610130004591 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 610130004592 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 610130004593 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 610130004594 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 610130004595 ATP binding site [chemical binding]; other site 610130004596 active site 610130004597 substrate binding site [chemical binding]; other site 610130004598 amidophosphoribosyltransferase; Provisional; Region: PRK05793 610130004599 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 610130004600 active site 610130004601 tetramer interface [polypeptide binding]; other site 610130004602 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130004603 active site 610130004604 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 610130004605 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 610130004606 tetramer interface [polypeptide binding]; other site 610130004607 active site 610130004608 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130004609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130004610 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 610130004611 dimerization interface [polypeptide binding]; other site 610130004612 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 610130004613 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 610130004614 GDP-binding site [chemical binding]; other site 610130004615 ACT binding site; other site 610130004616 IMP binding site; other site 610130004617 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130004618 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 610130004619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130004620 Walker A/P-loop; other site 610130004621 ATP binding site [chemical binding]; other site 610130004622 Q-loop/lid; other site 610130004623 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130004624 ABC transporter signature motif; other site 610130004625 Walker B; other site 610130004626 D-loop; other site 610130004627 ABC transporter; Region: ABC_tran_2; pfam12848 610130004628 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130004629 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 610130004630 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 610130004631 CoA binding domain; Region: CoA_binding; pfam02629 610130004632 putative carbohydrate kinase; Provisional; Region: PRK10565 610130004633 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 610130004634 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 610130004635 putative substrate binding site [chemical binding]; other site 610130004636 putative ATP binding site [chemical binding]; other site 610130004637 alanine racemase; Reviewed; Region: alr; PRK00053 610130004638 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 610130004639 active site 610130004640 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 610130004641 dimer interface [polypeptide binding]; other site 610130004642 substrate binding site [chemical binding]; other site 610130004643 catalytic residues [active] 610130004644 PemK-like protein; Region: PemK; pfam02452 610130004645 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 610130004646 Domain of unknown function DUF21; Region: DUF21; pfam01595 610130004647 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 610130004648 Transporter associated domain; Region: CorC_HlyC; pfam03471 610130004649 hypothetical protein; Validated; Region: PRK00110 610130004650 Sensory domain found in PocR; Region: PocR; pfam10114 610130004651 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 610130004652 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130004653 Coenzyme A binding pocket [chemical binding]; other site 610130004654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 610130004655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130004656 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 610130004657 Coenzyme A binding pocket [chemical binding]; other site 610130004658 oligoendopeptidase F; Region: pepF; TIGR00181 610130004659 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 610130004660 active site 610130004661 Zn binding site [ion binding]; other site 610130004662 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 610130004663 FMN binding site [chemical binding]; other site 610130004664 dimer interface [polypeptide binding]; other site 610130004665 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 610130004666 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 610130004667 putative dimer interface [polypeptide binding]; other site 610130004668 Flagellin N-methylase; Region: FliB; cl00497 610130004669 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 610130004670 active site 610130004671 dimer interface [polypeptide binding]; other site 610130004672 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 610130004673 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 610130004674 FAD binding pocket [chemical binding]; other site 610130004675 FAD binding motif [chemical binding]; other site 610130004676 phosphate binding motif [ion binding]; other site 610130004677 beta-alpha-beta structure motif; other site 610130004678 NAD binding pocket [chemical binding]; other site 610130004679 Iron coordination center [ion binding]; other site 610130004680 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 610130004681 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 610130004682 heterodimer interface [polypeptide binding]; other site 610130004683 active site 610130004684 FMN binding site [chemical binding]; other site 610130004685 homodimer interface [polypeptide binding]; other site 610130004686 substrate binding site [chemical binding]; other site 610130004687 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130004688 active site 610130004689 VanZ like family; Region: VanZ; pfam04892 610130004690 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 610130004691 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 610130004692 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 610130004693 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 610130004694 dimerization interface [polypeptide binding]; other site 610130004695 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130004696 dimer interface [polypeptide binding]; other site 610130004697 putative CheW interface [polypeptide binding]; other site 610130004698 AIR carboxylase; Region: AIRC; pfam00731 610130004699 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 610130004700 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 610130004701 dimerization interface [polypeptide binding]; other site 610130004702 putative ATP binding site [chemical binding]; other site 610130004703 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 610130004704 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 610130004705 active site 610130004706 substrate binding site [chemical binding]; other site 610130004707 cosubstrate binding site; other site 610130004708 catalytic site [active] 610130004709 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 610130004710 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 610130004711 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 610130004712 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 610130004713 N-terminal-like domain of Paenibacillus sp. YM-1 Laminaribiose Phosphorylase and similar proteins; Region: GH94N_LBP_like; cd11749 610130004714 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 610130004715 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130004716 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130004717 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130004718 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 610130004719 dimer interface [polypeptide binding]; other site 610130004720 conserved gate region; other site 610130004721 putative PBP binding loops; other site 610130004722 ABC-ATPase subunit interface; other site 610130004723 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130004724 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 610130004725 dimer interface [polypeptide binding]; other site 610130004726 conserved gate region; other site 610130004727 putative PBP binding loops; other site 610130004728 ABC-ATPase subunit interface; other site 610130004729 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 610130004730 Transcriptional regulators [Transcription]; Region: GntR; COG1802 610130004731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 610130004732 FCD domain; Region: FCD; pfam07729 610130004733 mannonate dehydratase; Provisional; Region: PRK03906 610130004734 mannonate dehydratase; Region: uxuA; TIGR00695 610130004735 altronate oxidoreductase; Provisional; Region: PRK03643 610130004736 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 610130004737 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 610130004738 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 610130004739 ArsC family; Region: ArsC; pfam03960 610130004740 catalytic residue [active] 610130004741 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 610130004742 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 610130004743 Rubredoxin; Region: Rubredoxin; pfam00301 610130004744 iron binding site [ion binding]; other site 610130004745 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 610130004746 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 610130004747 active site 610130004748 metal binding site [ion binding]; metal-binding site 610130004749 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 610130004750 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 610130004751 FMN binding site [chemical binding]; other site 610130004752 active site 610130004753 catalytic residues [active] 610130004754 substrate binding site [chemical binding]; other site 610130004755 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 610130004756 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 610130004757 active site 610130004758 putative substrate binding pocket [chemical binding]; other site 610130004759 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 610130004760 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 610130004761 DNA binding residues [nucleotide binding] 610130004762 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 610130004763 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 610130004764 ligand binding site [chemical binding]; other site 610130004765 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 610130004766 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130004767 Walker A/P-loop; other site 610130004768 ATP binding site [chemical binding]; other site 610130004769 Q-loop/lid; other site 610130004770 ABC transporter signature motif; other site 610130004771 Walker B; other site 610130004772 D-loop; other site 610130004773 H-loop/switch region; other site 610130004774 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130004775 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130004776 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 610130004777 TM-ABC transporter signature motif; other site 610130004778 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130004779 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 610130004780 TM-ABC transporter signature motif; other site 610130004781 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 610130004782 Class I ribonucleotide reductase; Region: RNR_I; cd01679 610130004783 active site 610130004784 dimer interface [polypeptide binding]; other site 610130004785 catalytic residues [active] 610130004786 effector binding site; other site 610130004787 R2 peptide binding site; other site 610130004788 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 610130004789 dimer interface [polypeptide binding]; other site 610130004790 putative radical transfer pathway; other site 610130004791 diiron center [ion binding]; other site 610130004792 tyrosyl radical; other site 610130004793 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 610130004794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130004795 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130004796 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130004797 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130004798 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 610130004799 non-specific DNA binding site [nucleotide binding]; other site 610130004800 salt bridge; other site 610130004801 sequence-specific DNA binding site [nucleotide binding]; other site 610130004802 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 610130004803 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 610130004804 metal binding triad [ion binding]; metal-binding site 610130004805 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 610130004806 MarR family; Region: MarR; pfam01047 610130004807 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130004808 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130004809 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130004810 Walker A/P-loop; other site 610130004811 ATP binding site [chemical binding]; other site 610130004812 Q-loop/lid; other site 610130004813 ABC transporter signature motif; other site 610130004814 Walker B; other site 610130004815 D-loop; other site 610130004816 H-loop/switch region; other site 610130004817 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130004818 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130004819 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 610130004820 Walker A/P-loop; other site 610130004821 ATP binding site [chemical binding]; other site 610130004822 Q-loop/lid; other site 610130004823 ABC transporter signature motif; other site 610130004824 Walker B; other site 610130004825 D-loop; other site 610130004826 H-loop/switch region; other site 610130004827 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 610130004828 SLBB domain; Region: SLBB; pfam10531 610130004829 4Fe-4S binding domain; Region: Fer4_6; pfam12837 610130004830 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 610130004831 FMN-binding domain; Region: FMN_bind; cl01081 610130004832 electron transport complex RsxE subunit; Provisional; Region: PRK12405 610130004833 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 610130004834 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130004835 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130004836 Glucuronate isomerase; Region: UxaC; pfam02614 610130004837 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 610130004838 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130004839 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130004840 DNA binding site [nucleotide binding] 610130004841 domain linker motif; other site 610130004842 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 610130004843 dimerization interface [polypeptide binding]; other site 610130004844 ligand binding site [chemical binding]; other site 610130004845 Transcriptional regulator [Transcription]; Region: IclR; COG1414 610130004846 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 610130004847 Bacterial transcriptional regulator; Region: IclR; pfam01614 610130004848 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 610130004849 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 610130004850 active site 610130004851 intersubunit interface [polypeptide binding]; other site 610130004852 catalytic residue [active] 610130004853 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130004854 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 610130004855 substrate binding site [chemical binding]; other site 610130004856 ATP binding site [chemical binding]; other site 610130004857 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 610130004858 substrate binding site [chemical binding]; other site 610130004859 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130004860 ATP binding site [chemical binding]; other site 610130004861 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130004862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130004863 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 610130004864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130004865 Walker A/P-loop; other site 610130004866 ATP binding site [chemical binding]; other site 610130004867 Q-loop/lid; other site 610130004868 ABC transporter signature motif; other site 610130004869 Walker B; other site 610130004870 D-loop; other site 610130004871 H-loop/switch region; other site 610130004872 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130004873 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 610130004874 TM-ABC transporter signature motif; other site 610130004875 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 610130004876 zinc binding site [ion binding]; other site 610130004877 putative ligand binding site [chemical binding]; other site 610130004878 Isochorismatase family; Region: Isochorismatase; pfam00857 610130004879 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 610130004880 catalytic triad [active] 610130004881 conserved cis-peptide bond; other site 610130004882 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 610130004883 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 610130004884 hinge; other site 610130004885 active site 610130004886 prephenate dehydrogenase; Validated; Region: PRK06545 610130004887 prephenate dehydrogenase; Validated; Region: PRK08507 610130004888 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 610130004889 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 610130004890 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 610130004891 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130004892 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 610130004893 active site 610130004894 phosphorylation site [posttranslational modification] 610130004895 intermolecular recognition site; other site 610130004896 dimerization interface [polypeptide binding]; other site 610130004897 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130004898 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 610130004899 dimerization interface [polypeptide binding]; other site 610130004900 Histidine kinase; Region: His_kinase; pfam06580 610130004901 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 610130004902 ATP binding site [chemical binding]; other site 610130004903 Mg2+ binding site [ion binding]; other site 610130004904 G-X-G motif; other site 610130004905 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130004906 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130004907 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130004908 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 610130004909 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 610130004910 dimer interface [polypeptide binding]; other site 610130004911 ABC-ATPase subunit interface; other site 610130004912 putative PBP binding loops; other site 610130004913 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130004914 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 610130004915 dimer interface [polypeptide binding]; other site 610130004916 conserved gate region; other site 610130004917 putative PBP binding loops; other site 610130004918 ABC-ATPase subunit interface; other site 610130004919 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 610130004920 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 610130004921 elongation factor G; Reviewed; Region: PRK12740 610130004922 G1 box; other site 610130004923 putative GEF interaction site [polypeptide binding]; other site 610130004924 GTP/Mg2+ binding site [chemical binding]; other site 610130004925 Switch I region; other site 610130004926 G2 box; other site 610130004927 G3 box; other site 610130004928 Switch II region; other site 610130004929 G4 box; other site 610130004930 G5 box; other site 610130004931 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 610130004932 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 610130004933 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 610130004934 hypothetical protein; Provisional; Region: PRK10977 610130004935 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 610130004936 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 610130004937 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 610130004938 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 610130004939 FeS/SAM binding site; other site 610130004940 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 610130004941 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 610130004942 ligand binding site [chemical binding]; other site 610130004943 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 610130004944 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130004945 Walker A/P-loop; other site 610130004946 ATP binding site [chemical binding]; other site 610130004947 Q-loop/lid; other site 610130004948 ABC transporter signature motif; other site 610130004949 Walker B; other site 610130004950 D-loop; other site 610130004951 H-loop/switch region; other site 610130004952 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130004953 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130004954 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 610130004955 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 610130004956 TM-ABC transporter signature motif; other site 610130004957 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130004958 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 610130004959 TM-ABC transporter signature motif; other site 610130004960 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 610130004961 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 610130004962 ligand binding site [chemical binding]; other site 610130004963 flexible hinge region; other site 610130004964 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 610130004965 non-specific DNA interactions [nucleotide binding]; other site 610130004966 DNA binding site [nucleotide binding] 610130004967 sequence specific DNA binding site [nucleotide binding]; other site 610130004968 putative cAMP binding site [chemical binding]; other site 610130004969 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 610130004970 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 610130004971 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 610130004972 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 610130004973 active site 610130004974 catalytic motif [active] 610130004975 Zn binding site [ion binding]; other site 610130004976 CAAX protease self-immunity; Region: Abi; pfam02517 610130004977 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 610130004978 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 610130004979 HIGH motif; other site 610130004980 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 610130004981 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 610130004982 active site 610130004983 KMSKS motif; other site 610130004984 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 610130004985 tRNA binding surface [nucleotide binding]; other site 610130004986 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 610130004987 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 610130004988 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 610130004989 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 610130004990 Domain of unknown function DUF20; Region: UPF0118; pfam01594 610130004991 Transposase IS200 like; Region: Y1_Tnp; pfam01797 610130004992 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 610130004993 homodimer interface [polypeptide binding]; other site 610130004994 homotetramer interface [polypeptide binding]; other site 610130004995 active site pocket [active] 610130004996 cleavage site 610130004997 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 610130004998 dimer interface [polypeptide binding]; other site 610130004999 active site 610130005000 Schiff base residues; other site 610130005001 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 610130005002 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 610130005003 active site 610130005004 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 610130005005 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 610130005006 VanW like protein; Region: VanW; pfam04294 610130005007 G5 domain; Region: G5; pfam07501 610130005008 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 610130005009 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 610130005010 dimer interface [polypeptide binding]; other site 610130005011 PYR/PP interface [polypeptide binding]; other site 610130005012 TPP binding site [chemical binding]; other site 610130005013 substrate binding site [chemical binding]; other site 610130005014 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 610130005015 Domain of unknown function; Region: EKR; pfam10371 610130005016 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 610130005017 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 610130005018 TPP-binding site [chemical binding]; other site 610130005019 dimer interface [polypeptide binding]; other site 610130005020 Protein of unknown function (DUF805); Region: DUF805; pfam05656 610130005021 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 610130005022 Predicted transcriptional regulators [Transcription]; Region: COG1725 610130005023 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130005024 DNA-binding site [nucleotide binding]; DNA binding site 610130005025 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130005026 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 610130005027 Walker A/P-loop; other site 610130005028 ATP binding site [chemical binding]; other site 610130005029 Q-loop/lid; other site 610130005030 ABC transporter signature motif; other site 610130005031 Walker B; other site 610130005032 D-loop; other site 610130005033 H-loop/switch region; other site 610130005034 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 610130005035 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 610130005036 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 610130005037 Sulfatase; Region: Sulfatase; pfam00884 610130005038 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 610130005039 Uncharacterized conserved protein [Function unknown]; Region: COG2006 610130005040 4Fe-4S binding domain; Region: Fer4; pfam00037 610130005041 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 610130005042 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 610130005043 homodimer interface [polypeptide binding]; other site 610130005044 substrate-cofactor binding pocket; other site 610130005045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130005046 catalytic residue [active] 610130005047 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 610130005048 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 610130005049 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 610130005050 putative active site [active] 610130005051 catalytic site [active] 610130005052 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 610130005053 putative active site [active] 610130005054 catalytic site [active] 610130005055 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 610130005056 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130005057 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 610130005058 dimerization interface [polypeptide binding]; other site 610130005059 Histidine kinase; Region: His_kinase; pfam06580 610130005060 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 610130005061 ATP binding site [chemical binding]; other site 610130005062 Mg2+ binding site [ion binding]; other site 610130005063 G-X-G motif; other site 610130005064 Response regulator receiver domain; Region: Response_reg; pfam00072 610130005065 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 610130005066 active site 610130005067 phosphorylation site [posttranslational modification] 610130005068 intermolecular recognition site; other site 610130005069 dimerization interface [polypeptide binding]; other site 610130005070 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130005071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005072 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130005073 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130005074 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 610130005075 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 610130005076 ABC-ATPase subunit interface; other site 610130005077 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130005078 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 610130005079 dimer interface [polypeptide binding]; other site 610130005080 ABC-ATPase subunit interface; other site 610130005081 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 610130005082 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 610130005083 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 610130005084 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 610130005085 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 610130005086 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 610130005087 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 610130005088 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 610130005089 NAD(P) binding site [chemical binding]; other site 610130005090 catalytic residues [active] 610130005091 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130005092 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130005093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130005094 Walker A/P-loop; other site 610130005095 ATP binding site [chemical binding]; other site 610130005096 Q-loop/lid; other site 610130005097 ABC transporter signature motif; other site 610130005098 Walker B; other site 610130005099 D-loop; other site 610130005100 H-loop/switch region; other site 610130005101 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130005102 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130005103 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 610130005104 Walker A/P-loop; other site 610130005105 ATP binding site [chemical binding]; other site 610130005106 Q-loop/lid; other site 610130005107 ABC transporter signature motif; other site 610130005108 Walker B; other site 610130005109 D-loop; other site 610130005110 H-loop/switch region; other site 610130005111 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 610130005112 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 610130005113 active site 610130005114 nucleophile elbow; other site 610130005115 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 610130005116 Part of AAA domain; Region: AAA_19; pfam13245 610130005117 Family description; Region: UvrD_C_2; pfam13538 610130005118 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 610130005119 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 610130005120 S-adenosylmethionine binding site [chemical binding]; other site 610130005121 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 610130005122 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130005123 Coenzyme A binding pocket [chemical binding]; other site 610130005124 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 610130005125 AAA domain; Region: AAA_31; pfam13614 610130005126 Helix-turn-helix domain; Region: HTH_36; pfam13730 610130005127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130005128 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 610130005129 ATP binding site [chemical binding]; other site 610130005130 Mg2+ binding site [ion binding]; other site 610130005131 G-X-G motif; other site 610130005132 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130005133 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 610130005134 active site 610130005135 phosphorylation site [posttranslational modification] 610130005136 intermolecular recognition site; other site 610130005137 dimerization interface [polypeptide binding]; other site 610130005138 LytTr DNA-binding domain; Region: LytTR; smart00850 610130005139 Helix-turn-helix domain; Region: HTH_38; pfam13936 610130005140 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 610130005141 S-layer homology domain; Region: SLH; pfam00395 610130005142 S-layer homology domain; Region: SLH; pfam00395 610130005143 S-layer homology domain; Region: SLH; pfam00395 610130005144 HTH-like domain; Region: HTH_21; pfam13276 610130005145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 610130005146 Integrase core domain; Region: rve; pfam00665 610130005147 Integrase core domain; Region: rve_2; pfam13333 610130005148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 610130005149 Helix-turn-helix domain; Region: HTH_28; pfam13518 610130005150 Helix-turn-helix domain; Region: HTH_28; pfam13518 610130005151 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 610130005152 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 610130005153 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 610130005154 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 610130005155 Phage-related protein [Function unknown]; Region: COG4695 610130005156 Phage portal protein; Region: Phage_portal; pfam04860 610130005157 Clp protease; Region: CLP_protease; pfam00574 610130005158 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 610130005159 oligomer interface [polypeptide binding]; other site 610130005160 active site residues [active] 610130005161 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 610130005162 Phage capsid family; Region: Phage_capsid; pfam05065 610130005163 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 610130005164 oligomerization interface [polypeptide binding]; other site 610130005165 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 610130005166 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 610130005167 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130005168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 610130005169 Coenzyme A binding pocket [chemical binding]; other site 610130005170 Protein of unknown function (DUF419); Region: DUF419; pfam04237 610130005171 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 610130005172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130005173 Walker A/P-loop; other site 610130005174 ATP binding site [chemical binding]; other site 610130005175 Q-loop/lid; other site 610130005176 ABC transporter signature motif; other site 610130005177 Walker B; other site 610130005178 D-loop; other site 610130005179 H-loop/switch region; other site 610130005180 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130005181 MarR family; Region: MarR; pfam01047 610130005182 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130005183 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130005184 H+ Antiporter protein; Region: 2A0121; TIGR00900 610130005185 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130005186 putative substrate translocation pore; other site 610130005187 YARHG domain; Region: YARHG; pfam13308 610130005188 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 610130005189 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 610130005190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005191 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130005192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005193 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 610130005194 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 610130005195 putative active site [active] 610130005196 putative metal binding site [ion binding]; other site 610130005197 RNHCP domain; Region: RNHCP; pfam12647 610130005198 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 610130005199 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 610130005200 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 610130005201 dimerization interface [polypeptide binding]; other site 610130005202 Histidine kinase; Region: His_kinase; pfam06580 610130005203 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 610130005204 ATP binding site [chemical binding]; other site 610130005205 Mg2+ binding site [ion binding]; other site 610130005206 G-X-G motif; other site 610130005207 Response regulator receiver domain; Region: Response_reg; pfam00072 610130005208 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 610130005209 active site 610130005210 phosphorylation site [posttranslational modification] 610130005211 intermolecular recognition site; other site 610130005212 dimerization interface [polypeptide binding]; other site 610130005213 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005214 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130005215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005216 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130005217 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130005218 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 610130005219 dimer interface [polypeptide binding]; other site 610130005220 conserved gate region; other site 610130005221 putative PBP binding loops; other site 610130005222 ABC-ATPase subunit interface; other site 610130005223 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130005224 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 610130005225 dimer interface [polypeptide binding]; other site 610130005226 conserved gate region; other site 610130005227 putative PBP binding loops; other site 610130005228 ABC-ATPase subunit interface; other site 610130005229 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 610130005230 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 610130005231 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130005232 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 610130005233 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 610130005234 putative ligand binding site [chemical binding]; other site 610130005235 putative NAD binding site [chemical binding]; other site 610130005236 catalytic site [active] 610130005237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130005238 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 610130005239 Walker A/P-loop; other site 610130005240 ATP binding site [chemical binding]; other site 610130005241 Q-loop/lid; other site 610130005242 ABC transporter signature motif; other site 610130005243 Walker B; other site 610130005244 D-loop; other site 610130005245 H-loop/switch region; other site 610130005246 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 610130005247 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 610130005248 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130005249 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 610130005250 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 610130005251 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 610130005252 FeS/SAM binding site; other site 610130005253 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 610130005254 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 610130005255 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 610130005256 intersubunit interface [polypeptide binding]; other site 610130005257 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 610130005258 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 610130005259 dimer interface [polypeptide binding]; other site 610130005260 putative PBP binding regions; other site 610130005261 ABC-ATPase subunit interface; other site 610130005262 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 610130005263 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 610130005264 Walker A/P-loop; other site 610130005265 ATP binding site [chemical binding]; other site 610130005266 Q-loop/lid; other site 610130005267 ABC transporter signature motif; other site 610130005268 Walker B; other site 610130005269 D-loop; other site 610130005270 H-loop/switch region; other site 610130005271 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 610130005272 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 610130005273 Walker A motif; other site 610130005274 ATP binding site [chemical binding]; other site 610130005275 Walker B motif; other site 610130005276 arginine finger; other site 610130005277 Predicted transcriptional regulators [Transcription]; Region: COG1695 610130005278 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 610130005279 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 610130005280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130005281 homodimer interface [polypeptide binding]; other site 610130005282 catalytic residue [active] 610130005283 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 610130005284 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 610130005285 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 610130005286 D-cysteine desulfhydrase; Validated; Region: PRK03910 610130005287 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 610130005288 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130005289 catalytic residue [active] 610130005290 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 610130005291 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 610130005292 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 610130005293 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 610130005294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130005295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130005296 metal binding site [ion binding]; metal-binding site 610130005297 active site 610130005298 I-site; other site 610130005299 phosphopentomutase; Provisional; Region: PRK05362 610130005300 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 610130005301 PTS system, maltose and glucose-specific IIBC component; Region: PTS-IIBC-malX; TIGR02004 610130005302 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130005303 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 610130005304 active site turn [active] 610130005305 phosphorylation site [posttranslational modification] 610130005306 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 610130005307 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 610130005308 tetramer interface [polypeptide binding]; other site 610130005309 active site 610130005310 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130005311 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 610130005312 NAD(P) binding site [chemical binding]; other site 610130005313 LDH/MDH dimer interface [polypeptide binding]; other site 610130005314 substrate binding site [chemical binding]; other site 610130005315 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 610130005316 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 610130005317 active site 610130005318 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 610130005319 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130005320 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130005321 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130005322 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130005323 Walker A/P-loop; other site 610130005324 ATP binding site [chemical binding]; other site 610130005325 Q-loop/lid; other site 610130005326 ABC transporter signature motif; other site 610130005327 Walker B; other site 610130005328 D-loop; other site 610130005329 H-loop/switch region; other site 610130005330 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130005331 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130005332 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 610130005333 TM-ABC transporter signature motif; other site 610130005334 5-methylribose kinase; Reviewed; Region: PRK12396 610130005335 Phosphotransferase enzyme family; Region: APH; pfam01636 610130005336 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 610130005337 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 610130005338 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 610130005339 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 610130005340 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 610130005341 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 610130005342 intersubunit interface [polypeptide binding]; other site 610130005343 active site 610130005344 Zn2+ binding site [ion binding]; other site 610130005345 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 610130005346 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 610130005347 putative catalytic cysteine [active] 610130005348 BMC domain; Region: BMC; pfam00936 610130005349 Hexamer interface [polypeptide binding]; other site 610130005350 Hexagonal pore residue; other site 610130005351 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130005352 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 610130005353 Hexamer interface [polypeptide binding]; other site 610130005354 Hexagonal pore residue; other site 610130005355 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cd06169 610130005356 Hexamer interface [polypeptide binding]; other site 610130005357 Hexagonal pore residue; other site 610130005358 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130005359 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 610130005360 Hexamer interface [polypeptide binding]; other site 610130005361 Hexagonal pore residue; other site 610130005362 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 610130005363 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130005364 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130005365 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 610130005366 Hexamer/Pentamer interface [polypeptide binding]; other site 610130005367 central pore; other site 610130005368 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130005369 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130005370 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 610130005371 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130005372 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130005373 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 610130005374 Coenzyme A transferase; Region: CoA_trans; cl17247 610130005375 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 610130005376 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 610130005377 active site 610130005378 NAD binding site [chemical binding]; other site 610130005379 metal binding site [ion binding]; metal-binding site 610130005380 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 610130005381 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 610130005382 DAK2 domain; Region: Dak2; pfam02734 610130005383 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 610130005384 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130005385 active site 610130005386 catalytic triad [active] 610130005387 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130005388 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130005389 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 610130005390 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 610130005391 TIGR02680 family protein; Region: TIGR02680 610130005392 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 610130005393 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 610130005394 FeS/SAM binding site; other site 610130005395 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 610130005396 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 610130005397 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 610130005398 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 610130005399 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 610130005400 DNA protecting protein DprA; Region: dprA; TIGR00732 610130005401 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 610130005402 DNA topoisomerase I; Validated; Region: PRK05582 610130005403 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 610130005404 active site 610130005405 interdomain interaction site; other site 610130005406 putative metal-binding site [ion binding]; other site 610130005407 nucleotide binding site [chemical binding]; other site 610130005408 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 610130005409 domain I; other site 610130005410 DNA binding groove [nucleotide binding] 610130005411 phosphate binding site [ion binding]; other site 610130005412 domain II; other site 610130005413 domain III; other site 610130005414 nucleotide binding site [chemical binding]; other site 610130005415 catalytic site [active] 610130005416 domain IV; other site 610130005417 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 610130005418 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 610130005419 transcriptional repressor CodY; Validated; Region: PRK04158 610130005420 CodY GAF-like domain; Region: CodY; pfam06018 610130005421 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 610130005422 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 610130005423 rRNA interaction site [nucleotide binding]; other site 610130005424 S8 interaction site; other site 610130005425 putative laminin-1 binding site; other site 610130005426 elongation factor Ts; Provisional; Region: tsf; PRK09377 610130005427 UBA/TS-N domain; Region: UBA; pfam00627 610130005428 Elongation factor TS; Region: EF_TS; pfam00889 610130005429 Elongation factor TS; Region: EF_TS; pfam00889 610130005430 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 610130005431 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 610130005432 dimer interface [polypeptide binding]; other site 610130005433 conserved gate region; other site 610130005434 putative PBP binding loops; other site 610130005435 ABC-ATPase subunit interface; other site 610130005436 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 610130005437 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 610130005438 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 610130005439 dimer interface [polypeptide binding]; other site 610130005440 conserved gate region; other site 610130005441 putative PBP binding loops; other site 610130005442 ABC-ATPase subunit interface; other site 610130005443 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 610130005444 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130005445 Walker A/P-loop; other site 610130005446 ATP binding site [chemical binding]; other site 610130005447 Q-loop/lid; other site 610130005448 ABC transporter signature motif; other site 610130005449 Walker B; other site 610130005450 D-loop; other site 610130005451 H-loop/switch region; other site 610130005452 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 610130005453 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 610130005454 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130005455 Walker A/P-loop; other site 610130005456 ATP binding site [chemical binding]; other site 610130005457 Q-loop/lid; other site 610130005458 ABC transporter signature motif; other site 610130005459 Walker B; other site 610130005460 D-loop; other site 610130005461 H-loop/switch region; other site 610130005462 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 610130005463 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 610130005464 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 610130005465 peptide binding site [polypeptide binding]; other site 610130005466 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 610130005467 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 610130005468 peptide binding site [polypeptide binding]; other site 610130005469 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 610130005470 putative nucleotide binding site [chemical binding]; other site 610130005471 uridine monophosphate binding site [chemical binding]; other site 610130005472 homohexameric interface [polypeptide binding]; other site 610130005473 ribosome recycling factor; Reviewed; Region: frr; PRK00083 610130005474 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 610130005475 hinge region; other site 610130005476 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 610130005477 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 610130005478 catalytic residue [active] 610130005479 putative FPP diphosphate binding site; other site 610130005480 putative FPP binding hydrophobic cleft; other site 610130005481 dimer interface [polypeptide binding]; other site 610130005482 putative IPP diphosphate binding site; other site 610130005483 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 610130005484 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 610130005485 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 610130005486 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 610130005487 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 610130005488 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 610130005489 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 610130005490 RIP metalloprotease RseP; Region: TIGR00054 610130005491 active site 610130005492 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 610130005493 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 610130005494 putative substrate binding region [chemical binding]; other site 610130005495 GcpE protein; Region: GcpE; pfam04551 610130005496 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 610130005497 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 610130005498 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 610130005499 DNA polymerase III, alpha chain, Gram-positive type; Region: polC_Gram_pos; TIGR01405 610130005500 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 610130005501 generic binding surface I; other site 610130005502 generic binding surface II; other site 610130005503 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 610130005504 active site 610130005505 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 610130005506 active site 610130005507 catalytic site [active] 610130005508 substrate binding site [chemical binding]; other site 610130005509 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 610130005510 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 610130005511 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130005512 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130005513 metal binding site [ion binding]; metal-binding site 610130005514 active site 610130005515 I-site; other site 610130005516 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 610130005517 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 610130005518 Cytochrome P450; Region: p450; cl12078 610130005519 Acylphosphatase; Region: Acylphosphatase; pfam00708 610130005520 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 610130005521 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 610130005522 Mg2+ binding site [ion binding]; other site 610130005523 G-X-G motif; other site 610130005524 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 610130005525 anchoring element; other site 610130005526 dimer interface [polypeptide binding]; other site 610130005527 ATP binding site [chemical binding]; other site 610130005528 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 610130005529 active site 610130005530 putative metal-binding site [ion binding]; other site 610130005531 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 610130005532 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 610130005533 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 610130005534 CAP-like domain; other site 610130005535 active site 610130005536 primary dimer interface [polypeptide binding]; other site 610130005537 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 610130005538 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 610130005539 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 610130005540 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 610130005541 active site 610130005542 catalytic residues [active] 610130005543 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 610130005544 EamA-like transporter family; Region: EamA; pfam00892 610130005545 EamA-like transporter family; Region: EamA; pfam00892 610130005546 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 610130005547 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 610130005548 active site 610130005549 putative interdomain interaction site [polypeptide binding]; other site 610130005550 putative metal-binding site [ion binding]; other site 610130005551 putative nucleotide binding site [chemical binding]; other site 610130005552 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; cl11986 610130005553 domain I; other site 610130005554 phosphate binding site [ion binding]; other site 610130005555 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; cl11986 610130005556 domain II; other site 610130005557 domain III; other site 610130005558 nucleotide binding site [chemical binding]; other site 610130005559 DNA binding groove [nucleotide binding] 610130005560 catalytic site [active] 610130005561 domain IV; other site 610130005562 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 610130005563 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 610130005564 Na2 binding site [ion binding]; other site 610130005565 putative substrate binding site 1 [chemical binding]; other site 610130005566 Na binding site 1 [ion binding]; other site 610130005567 putative substrate binding site 2 [chemical binding]; other site 610130005568 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130005569 active site 610130005570 Putative zinc-finger; Region: zf-HC2; pfam13490 610130005571 DNA polymerase I; Provisional; Region: PRK05755 610130005572 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 610130005573 active site 610130005574 metal binding site 1 [ion binding]; metal-binding site 610130005575 putative 5' ssDNA interaction site; other site 610130005576 metal binding site 3; metal-binding site 610130005577 metal binding site 2 [ion binding]; metal-binding site 610130005578 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 610130005579 putative DNA binding site [nucleotide binding]; other site 610130005580 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 610130005581 catalytic site [active] 610130005582 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 610130005583 active site 610130005584 DNA binding site [nucleotide binding] 610130005585 catalytic site [active] 610130005586 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 610130005587 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 610130005588 CoA-binding site [chemical binding]; other site 610130005589 ATP-binding [chemical binding]; other site 610130005590 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 610130005591 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 610130005592 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 610130005593 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 610130005594 catalytic core [active] 610130005595 Methyltransferase domain; Region: Methyltransf_31; pfam13847 610130005596 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 610130005597 S-adenosylmethionine binding site [chemical binding]; other site 610130005598 macrophage migration inhibitory factor-like protein; Provisional; Region: PTZ00450 610130005599 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 610130005600 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 610130005601 nudix motif; other site 610130005602 hypothetical protein; Provisional; Region: PRK13670 610130005603 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 610130005604 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 610130005605 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130005606 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130005607 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 610130005608 propionate/acetate kinase; Provisional; Region: PRK12379 610130005609 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 610130005610 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 610130005611 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130005612 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130005613 DNA binding site [nucleotide binding] 610130005614 domain linker motif; other site 610130005615 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 610130005616 ligand binding site [chemical binding]; other site 610130005617 dimerization interface [polypeptide binding]; other site 610130005618 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 610130005619 intersubunit interface [polypeptide binding]; other site 610130005620 active site 610130005621 catalytic residue [active] 610130005622 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130005623 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 610130005624 substrate binding site [chemical binding]; other site 610130005625 dimer interface [polypeptide binding]; other site 610130005626 ATP binding site [chemical binding]; other site 610130005627 D-ribose pyranase; Provisional; Region: PRK11797 610130005628 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130005629 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130005630 Walker A/P-loop; other site 610130005631 ATP binding site [chemical binding]; other site 610130005632 Q-loop/lid; other site 610130005633 ABC transporter signature motif; other site 610130005634 Walker B; other site 610130005635 D-loop; other site 610130005636 H-loop/switch region; other site 610130005637 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130005638 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130005639 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 610130005640 TM-ABC transporter signature motif; other site 610130005641 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 610130005642 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130005643 ligand binding site [chemical binding]; other site 610130005644 dimerization interface [polypeptide binding]; other site 610130005645 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 610130005646 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 610130005647 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 610130005648 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE; Region: HTH_TioE_rpt1; cd04772 610130005649 DNA binding residues [nucleotide binding] 610130005650 putative dimer interface [polypeptide binding]; other site 610130005651 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 610130005652 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130005653 DNA binding residues [nucleotide binding] 610130005654 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 610130005655 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 610130005656 Walker A/P-loop; other site 610130005657 ATP binding site [chemical binding]; other site 610130005658 Q-loop/lid; other site 610130005659 ABC transporter signature motif; other site 610130005660 Walker B; other site 610130005661 D-loop; other site 610130005662 H-loop/switch region; other site 610130005663 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 610130005664 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 610130005665 Response regulator receiver domain; Region: Response_reg; pfam00072 610130005666 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 610130005667 active site 610130005668 phosphorylation site [posttranslational modification] 610130005669 intermolecular recognition site; other site 610130005670 dimerization interface [polypeptide binding]; other site 610130005671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005672 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130005673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005674 Histidine kinase; Region: His_kinase; pfam06580 610130005675 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 610130005676 ATP binding site [chemical binding]; other site 610130005677 Mg2+ binding site [ion binding]; other site 610130005678 G-X-G motif; other site 610130005679 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130005680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130005681 Walker A/P-loop; other site 610130005682 ATP binding site [chemical binding]; other site 610130005683 Q-loop/lid; other site 610130005684 ABC transporter signature motif; other site 610130005685 Walker B; other site 610130005686 D-loop; other site 610130005687 H-loop/switch region; other site 610130005688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130005689 Walker A/P-loop; other site 610130005690 ATP binding site [chemical binding]; other site 610130005691 Q-loop/lid; other site 610130005692 ABC transporter signature motif; other site 610130005693 Walker B; other site 610130005694 D-loop; other site 610130005695 H-loop/switch region; other site 610130005696 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130005697 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130005698 Walker A/P-loop; other site 610130005699 ATP binding site [chemical binding]; other site 610130005700 Q-loop/lid; other site 610130005701 ABC transporter signature motif; other site 610130005702 Walker B; other site 610130005703 D-loop; other site 610130005704 H-loop/switch region; other site 610130005705 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130005706 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130005707 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 610130005708 TM-ABC transporter signature motif; other site 610130005709 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 610130005710 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130005711 putative ligand binding site [chemical binding]; other site 610130005712 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 610130005713 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 610130005714 nucleotide binding site [chemical binding]; other site 610130005715 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130005716 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 610130005717 putative phosphate acyltransferase; Provisional; Region: PRK05331 610130005718 acyl carrier protein; Provisional; Region: acpP; PRK00982 610130005719 ribonuclease III; Reviewed; Region: rnc; PRK00102 610130005720 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 610130005721 dimerization interface [polypeptide binding]; other site 610130005722 active site 610130005723 metal binding site [ion binding]; metal-binding site 610130005724 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 610130005725 dsRNA binding site [nucleotide binding]; other site 610130005726 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 610130005727 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 610130005728 Walker A/P-loop; other site 610130005729 ATP binding site [chemical binding]; other site 610130005730 Q-loop/lid; other site 610130005731 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 610130005732 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 610130005733 ABC transporter signature motif; other site 610130005734 Walker B; other site 610130005735 D-loop; other site 610130005736 H-loop/switch region; other site 610130005737 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 610130005738 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 610130005739 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 610130005740 P loop; other site 610130005741 GTP binding site [chemical binding]; other site 610130005742 threonine dehydratase; Provisional; Region: PRK08198 610130005743 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 610130005744 tetramer interface [polypeptide binding]; other site 610130005745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130005746 catalytic residue [active] 610130005747 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 610130005748 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 610130005749 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 610130005750 FeS/SAM binding site; other site 610130005751 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 610130005752 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130005753 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 610130005754 active site 610130005755 phosphorylation site [posttranslational modification] 610130005756 intermolecular recognition site; other site 610130005757 dimerization interface [polypeptide binding]; other site 610130005758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130005760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130005761 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 610130005762 dimerization interface [polypeptide binding]; other site 610130005763 Histidine kinase; Region: His_kinase; pfam06580 610130005764 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 610130005765 ATP binding site [chemical binding]; other site 610130005766 Mg2+ binding site [ion binding]; other site 610130005767 G-X-G motif; other site 610130005768 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130005769 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130005770 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 610130005771 dimer interface [polypeptide binding]; other site 610130005772 putative PBP binding loops; other site 610130005773 ABC-ATPase subunit interface; other site 610130005774 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130005775 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 610130005776 dimer interface [polypeptide binding]; other site 610130005777 conserved gate region; other site 610130005778 putative PBP binding loops; other site 610130005779 ABC-ATPase subunit interface; other site 610130005780 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 610130005781 Sulfatase; Region: Sulfatase; cl17466 610130005782 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 610130005783 Uncharacterized conserved protein [Function unknown]; Region: COG3339 610130005784 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130005785 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 610130005786 active site 610130005787 phosphorylation site [posttranslational modification] 610130005788 intermolecular recognition site; other site 610130005789 dimerization interface [polypeptide binding]; other site 610130005790 LytTr DNA-binding domain; Region: LytTR; smart00850 610130005791 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130005792 Accessory gene regulator B; Region: AgrB; pfam04647 610130005793 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 610130005794 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 610130005795 Walker A motif; other site 610130005796 ATP binding site [chemical binding]; other site 610130005797 Walker B motif; other site 610130005798 arginine finger; other site 610130005799 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 610130005800 active pocket/dimerization site; other site 610130005801 active site 610130005802 phosphorylation site [posttranslational modification] 610130005803 PRD domain; Region: PRD; pfam00874 610130005804 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 610130005805 active pocket/dimerization site; other site 610130005806 active site 610130005807 phosphorylation site [posttranslational modification] 610130005808 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 610130005809 active site 610130005810 phosphorylation site [posttranslational modification] 610130005811 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 610130005812 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 610130005813 BtpA family; Region: BtpA; cl00440 610130005814 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 610130005815 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 610130005816 motif I; other site 610130005817 active site 610130005818 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 610130005819 motif II; other site 610130005820 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 610130005821 Domain of unknown function (DUF814); Region: DUF814; pfam05670 610130005822 hypothetical protein; Provisional; Region: PRK11820 610130005823 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 610130005824 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 610130005825 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 610130005826 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 610130005827 catalytic site [active] 610130005828 G-X2-G-X-G-K; other site 610130005829 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 610130005830 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 610130005831 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 610130005832 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 610130005833 FeS/SAM binding site; other site 610130005834 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 610130005835 competence damage-inducible protein A; Provisional; Region: PRK00549 610130005836 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 610130005837 putative MPT binding site; other site 610130005838 Competence-damaged protein; Region: CinA; pfam02464 610130005839 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 610130005840 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 610130005841 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 610130005842 Asp23 family; Region: Asp23; pfam03780 610130005843 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 610130005844 DAK2 domain; Region: Dak2; pfam02734 610130005845 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 610130005846 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 610130005847 generic binding surface II; other site 610130005848 ssDNA binding site; other site 610130005849 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 610130005850 ATP binding site [chemical binding]; other site 610130005851 putative Mg++ binding site [ion binding]; other site 610130005852 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 610130005853 nucleotide binding region [chemical binding]; other site 610130005854 ATP-binding site [chemical binding]; other site 610130005855 Protein of unknown function (DUF975); Region: DUF975; cl10504 610130005856 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 610130005857 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 610130005858 ATP-binding site [chemical binding]; other site 610130005859 Sugar specificity; other site 610130005860 Pyrimidine base specificity; other site 610130005861 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 610130005862 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 610130005863 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 610130005864 S-adenosylmethionine binding site [chemical binding]; other site 610130005865 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 610130005866 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 610130005867 active site 610130005868 (T/H)XGH motif; other site 610130005869 type III secretion system protein HrpB; Validated; Region: PRK09098 610130005870 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 610130005871 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 610130005872 Peptidase family M23; Region: Peptidase_M23; pfam01551 610130005873 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 610130005874 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 610130005875 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 610130005876 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 610130005877 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 610130005878 RNA binding surface [nucleotide binding]; other site 610130005879 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 610130005880 active site 610130005881 uracil binding [chemical binding]; other site 610130005882 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 610130005883 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 610130005884 motif II; other site 610130005885 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 610130005886 hypothetical protein; Provisional; Region: PRK00955 610130005887 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 610130005888 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 610130005889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130005890 NAD(P) binding site [chemical binding]; other site 610130005891 active site 610130005892 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 610130005893 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 610130005894 RNA binding surface [nucleotide binding]; other site 610130005895 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 610130005896 active site 610130005897 Recombination protein U; Region: RecU; pfam03838 610130005898 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 610130005899 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 610130005900 dimer interface [polypeptide binding]; other site 610130005901 motif 1; other site 610130005902 active site 610130005903 motif 2; other site 610130005904 motif 3; other site 610130005905 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 610130005906 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 610130005907 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 610130005908 histidinol dehydrogenase; Region: hisD; TIGR00069 610130005909 NAD binding site [chemical binding]; other site 610130005910 dimerization interface [polypeptide binding]; other site 610130005911 product binding site; other site 610130005912 substrate binding site [chemical binding]; other site 610130005913 zinc binding site [ion binding]; other site 610130005914 catalytic residues [active] 610130005915 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 610130005916 putative active site pocket [active] 610130005917 4-fold oligomerization interface [polypeptide binding]; other site 610130005918 metal binding residues [ion binding]; metal-binding site 610130005919 3-fold/trimer interface [polypeptide binding]; other site 610130005920 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 610130005921 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 610130005922 catalytic residues [active] 610130005923 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 610130005924 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 610130005925 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 610130005926 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 610130005927 metal binding site [ion binding]; metal-binding site 610130005928 peptidase T; Region: peptidase-T; TIGR01882 610130005929 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 610130005930 metal binding site [ion binding]; metal-binding site 610130005931 dimer interface [polypeptide binding]; other site 610130005932 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 610130005933 active site 610130005934 phosphorylation site [posttranslational modification] 610130005935 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 610130005936 active site 610130005937 P-loop; other site 610130005938 phosphorylation site [posttranslational modification] 610130005939 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 610130005940 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 610130005941 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130005942 PRD domain; Region: PRD; pfam00874 610130005943 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 610130005944 active site 610130005945 P-loop; other site 610130005946 phosphorylation site [posttranslational modification] 610130005947 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; cl00163 610130005948 active site 610130005949 phosphorylation site [posttranslational modification] 610130005950 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 610130005951 intersubunit interface [polypeptide binding]; other site 610130005952 active site 610130005953 Zn2+ binding site [ion binding]; other site 610130005954 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 610130005955 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 610130005956 DAK2 domain; Region: Dak2; pfam02734 610130005957 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 610130005958 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 610130005959 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 610130005960 FeS/SAM binding site; other site 610130005961 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 610130005962 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 610130005963 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 610130005964 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 610130005965 homodimer interface [polypeptide binding]; other site 610130005966 oligonucleotide binding site [chemical binding]; other site 610130005967 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 610130005968 TrkA-N domain; Region: TrkA_N; pfam02254 610130005969 TrkA-C domain; Region: TrkA_C; pfam02080 610130005970 TrkA-N domain; Region: TrkA_N; pfam02254 610130005971 TrkA-C domain; Region: TrkA_C; pfam02080 610130005972 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 610130005973 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 610130005974 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 610130005975 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 610130005976 Protein of unknown function (DUF464); Region: DUF464; pfam04327 610130005977 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 610130005978 GTPase CgtA; Reviewed; Region: obgE; PRK12297 610130005979 GTP1/OBG; Region: GTP1_OBG; pfam01018 610130005980 Obg GTPase; Region: Obg; cd01898 610130005981 G1 box; other site 610130005982 GTP/Mg2+ binding site [chemical binding]; other site 610130005983 Switch I region; other site 610130005984 G2 box; other site 610130005985 G3 box; other site 610130005986 Switch II region; other site 610130005987 G4 box; other site 610130005988 G5 box; other site 610130005989 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 610130005990 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 610130005991 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 610130005992 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 610130005993 active site 610130005994 (T/H)XGH motif; other site 610130005995 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130005996 Zn2+ binding site [ion binding]; other site 610130005997 Mg2+ binding site [ion binding]; other site 610130005998 Oligomerisation domain; Region: Oligomerisation; pfam02410 610130005999 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 610130006000 LexA repressor; Validated; Region: PRK00215 610130006001 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 610130006002 Catalytic site [active] 610130006003 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130006004 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 610130006005 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 610130006006 G1 box; other site 610130006007 putative GEF interaction site [polypeptide binding]; other site 610130006008 GTP/Mg2+ binding site [chemical binding]; other site 610130006009 Switch I region; other site 610130006010 G2 box; other site 610130006011 G3 box; other site 610130006012 Switch II region; other site 610130006013 G4 box; other site 610130006014 G5 box; other site 610130006015 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 610130006016 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 610130006017 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 610130006018 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 610130006019 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 610130006020 active site 610130006021 Int/Topo IB signature motif; other site 610130006022 DNA binding site [nucleotide binding] 610130006023 allantoate amidohydrolase; Reviewed; Region: PRK09290 610130006024 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 610130006025 active site 610130006026 metal binding site [ion binding]; metal-binding site 610130006027 dimer interface [polypeptide binding]; other site 610130006028 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130006029 H+ Antiporter protein; Region: 2A0121; TIGR00900 610130006030 putative substrate translocation pore; other site 610130006031 Transcriptional regulator [Transcription]; Region: LytR; COG1316 610130006032 NlpC/P60 family; Region: NLPC_P60; cl17555 610130006033 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 610130006034 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 610130006035 active site 610130006036 motif I; other site 610130006037 motif II; other site 610130006038 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 610130006039 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 610130006040 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 610130006041 glutaminase active site [active] 610130006042 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 610130006043 dimer interface [polypeptide binding]; other site 610130006044 active site 610130006045 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 610130006046 dimer interface [polypeptide binding]; other site 610130006047 active site 610130006048 putative mutase; Provisional; Region: PRK12383 610130006049 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 610130006050 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 610130006051 dimer interface [polypeptide binding]; other site 610130006052 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 610130006053 active site 610130006054 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 610130006055 substrate binding site [chemical binding]; other site 610130006056 catalytic residue [active] 610130006057 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 610130006058 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130006059 catalytic residue [active] 610130006060 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 610130006061 active site 610130006062 substrate binding pocket [chemical binding]; other site 610130006063 homodimer interaction site [polypeptide binding]; other site 610130006064 Amidase; Region: Amidase; cl11426 610130006065 Protein of unknown function; Region: YhfT; pfam10797 610130006066 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 610130006067 PRD domain; Region: PRD; pfam00874 610130006068 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 610130006069 NMT1/THI5 like; Region: NMT1; pfam09084 610130006070 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 610130006071 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 610130006072 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 610130006073 RNA binding surface [nucleotide binding]; other site 610130006074 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 610130006075 active site 610130006076 lipoprotein signal peptidase; Provisional; Region: PRK14767 610130006077 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 610130006078 active site 610130006079 dimer interface [polypeptide binding]; other site 610130006080 metal binding site [ion binding]; metal-binding site 610130006081 Protein of unknown function (DUF552); Region: DUF552; pfam04472 610130006082 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 610130006083 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 610130006084 catalytic residue [active] 610130006085 HlyD family secretion protein; Region: HlyD_2; pfam12700 610130006086 CAF1 family ribonuclease; Region: CAF1; cl17591 610130006087 putative membrane fusion protein; Region: TIGR02828 610130006088 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 610130006089 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 610130006090 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 610130006091 active site 610130006092 dimer interfaces [polypeptide binding]; other site 610130006093 catalytic residues [active] 610130006094 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 610130006095 Septum formation topological specificity factor MinE; Region: MinE; cl00538 610130006096 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 610130006097 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 610130006098 Switch I; other site 610130006099 Switch II; other site 610130006100 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 610130006101 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 610130006102 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 610130006103 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 610130006104 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 610130006105 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 610130006106 rod shape-determining protein MreC; Provisional; Region: PRK13922 610130006107 rod shape-determining protein MreC; Region: MreC; pfam04085 610130006108 hypothetical protein; Reviewed; Region: PRK00024 610130006109 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 610130006110 MPN+ (JAMM) motif; other site 610130006111 Zinc-binding site [ion binding]; other site 610130006112 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 610130006113 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 610130006114 Aluminium resistance protein; Region: Alum_res; pfam06838 610130006115 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 610130006116 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 610130006117 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 610130006118 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 610130006119 ATP binding site [chemical binding]; other site 610130006120 Mg2+ binding site [ion binding]; other site 610130006121 G-X-G motif; other site 610130006122 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 610130006123 ATP binding site [chemical binding]; other site 610130006124 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 610130006125 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 610130006126 MutS domain I; Region: MutS_I; pfam01624 610130006127 MutS domain II; Region: MutS_II; pfam05188 610130006128 MutS domain III; Region: MutS_III; pfam05192 610130006129 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 610130006130 Walker A/P-loop; other site 610130006131 ATP binding site [chemical binding]; other site 610130006132 Q-loop/lid; other site 610130006133 ABC transporter signature motif; other site 610130006134 Walker B; other site 610130006135 D-loop; other site 610130006136 H-loop/switch region; other site 610130006137 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 610130006138 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 610130006139 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 610130006140 FeS/SAM binding site; other site 610130006141 TRAM domain; Region: TRAM; cl01282 610130006142 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 610130006143 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 610130006144 beta-galactosidase; Region: BGL; TIGR03356 610130006145 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 610130006146 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 610130006147 active site turn [active] 610130006148 phosphorylation site [posttranslational modification] 610130006149 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130006150 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 610130006151 HPr interaction site; other site 610130006152 glycerol kinase (GK) interaction site [polypeptide binding]; other site 610130006153 active site 610130006154 phosphorylation site [posttranslational modification] 610130006155 transcriptional antiterminator BglG; Provisional; Region: PRK09772 610130006156 CAT RNA binding domain; Region: CAT_RBD; pfam03123 610130006157 PRD domain; Region: PRD; pfam00874 610130006158 PRD domain; Region: PRD; pfam00874 610130006159 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 610130006160 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130006161 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130006162 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 610130006163 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 610130006164 putative catalytic cysteine [active] 610130006165 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 610130006166 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 610130006167 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 610130006168 gamma-glutamyl kinase; Provisional; Region: PRK05429 610130006169 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 610130006170 nucleotide binding site [chemical binding]; other site 610130006171 homotetrameric interface [polypeptide binding]; other site 610130006172 putative phosphate binding site [ion binding]; other site 610130006173 putative allosteric binding site; other site 610130006174 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 610130006175 flavoprotein, HI0933 family; Region: TIGR00275 610130006176 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130006177 stage V sporulation protein B; Region: spore_V_B; TIGR02900 610130006178 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 610130006179 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 610130006180 metal-binding heat shock protein; Provisional; Region: PRK00016 610130006181 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 610130006182 PhoH-like protein; Region: PhoH; pfam02562 610130006183 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 610130006184 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 610130006185 YabP family; Region: YabP; cl06766 610130006186 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 610130006187 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 610130006188 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 610130006189 motif 1; other site 610130006190 active site 610130006191 motif 2; other site 610130006192 motif 3; other site 610130006193 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 610130006194 DHHA1 domain; Region: DHHA1; pfam02272 610130006195 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 610130006196 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 610130006197 RNA/DNA hybrid binding site [nucleotide binding]; other site 610130006198 active site 610130006199 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 610130006200 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130006201 Beta-Casp domain; Region: Beta-Casp; smart01027 610130006202 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 610130006203 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 610130006204 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 610130006205 G1 box; other site 610130006206 GTP/Mg2+ binding site [chemical binding]; other site 610130006207 G2 box; other site 610130006208 Switch I region; other site 610130006209 G3 box; other site 610130006210 Switch II region; other site 610130006211 G5 box; other site 610130006212 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 610130006213 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 610130006214 putative N- and C-terminal domain interface [polypeptide binding]; other site 610130006215 putative active site [active] 610130006216 MgATP binding site [chemical binding]; other site 610130006217 catalytic site [active] 610130006218 metal binding site [ion binding]; metal-binding site 610130006219 putative carbohydrate binding site [chemical binding]; other site 610130006220 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 610130006221 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 610130006222 putative N- and C-terminal domain interface [polypeptide binding]; other site 610130006223 putative active site [active] 610130006224 MgATP binding site [chemical binding]; other site 610130006225 catalytic site [active] 610130006226 metal binding site [ion binding]; metal-binding site 610130006227 putative xylulose binding site [chemical binding]; other site 610130006228 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 610130006229 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 610130006230 AP (apurinic/apyrimidinic) site pocket; other site 610130006231 DNA interaction; other site 610130006232 Metal-binding active site; metal-binding site 610130006233 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 610130006234 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 610130006235 putative NAD(P) binding site [chemical binding]; other site 610130006236 catalytic Zn binding site [ion binding]; other site 610130006237 structural Zn binding site [ion binding]; other site 610130006238 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 610130006239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130006240 Walker A/P-loop; other site 610130006241 ATP binding site [chemical binding]; other site 610130006242 Q-loop/lid; other site 610130006243 ABC transporter signature motif; other site 610130006244 Walker B; other site 610130006245 D-loop; other site 610130006246 H-loop/switch region; other site 610130006247 TOBE domain; Region: TOBE_2; pfam08402 610130006248 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 610130006249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130006250 Walker A/P-loop; other site 610130006251 ATP binding site [chemical binding]; other site 610130006252 Q-loop/lid; other site 610130006253 ABC transporter signature motif; other site 610130006254 Walker B; other site 610130006255 D-loop; other site 610130006256 H-loop/switch region; other site 610130006257 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130006258 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 610130006259 dimer interface [polypeptide binding]; other site 610130006260 conserved gate region; other site 610130006261 putative PBP binding loops; other site 610130006262 ABC-ATPase subunit interface; other site 610130006263 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 610130006264 dimer interface [polypeptide binding]; other site 610130006265 conserved gate region; other site 610130006266 putative PBP binding loops; other site 610130006267 ABC-ATPase subunit interface; other site 610130006268 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130006269 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130006270 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130006271 Response regulator receiver domain; Region: Response_reg; pfam00072 610130006272 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 610130006273 active site 610130006274 phosphorylation site [posttranslational modification] 610130006275 intermolecular recognition site; other site 610130006276 dimerization interface [polypeptide binding]; other site 610130006277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130006278 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130006279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130006280 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 610130006281 dimerization interface [polypeptide binding]; other site 610130006282 Histidine kinase; Region: His_kinase; pfam06580 610130006283 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 610130006284 ATP binding site [chemical binding]; other site 610130006285 Mg2+ binding site [ion binding]; other site 610130006286 G-X-G motif; other site 610130006287 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 610130006288 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 610130006289 Walker A/P-loop; other site 610130006290 ATP binding site [chemical binding]; other site 610130006291 Q-loop/lid; other site 610130006292 ABC transporter signature motif; other site 610130006293 Walker B; other site 610130006294 D-loop; other site 610130006295 H-loop/switch region; other site 610130006296 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 610130006297 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 610130006298 Walker A/P-loop; other site 610130006299 ATP binding site [chemical binding]; other site 610130006300 Q-loop/lid; other site 610130006301 ABC transporter signature motif; other site 610130006302 Walker B; other site 610130006303 D-loop; other site 610130006304 H-loop/switch region; other site 610130006305 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 610130006306 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 610130006307 TM-ABC transporter signature motif; other site 610130006308 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130006309 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 610130006310 TM-ABC transporter signature motif; other site 610130006311 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 610130006312 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 610130006313 putative ligand binding site [chemical binding]; other site 610130006314 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 610130006315 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 610130006316 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 610130006317 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 610130006318 GTP-binding protein Der; Reviewed; Region: PRK00093 610130006319 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 610130006320 G1 box; other site 610130006321 GTP/Mg2+ binding site [chemical binding]; other site 610130006322 Switch I region; other site 610130006323 G2 box; other site 610130006324 Switch II region; other site 610130006325 G3 box; other site 610130006326 G4 box; other site 610130006327 G5 box; other site 610130006328 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 610130006329 G1 box; other site 610130006330 GTP/Mg2+ binding site [chemical binding]; other site 610130006331 Switch I region; other site 610130006332 G2 box; other site 610130006333 G3 box; other site 610130006334 Switch II region; other site 610130006335 G4 box; other site 610130006336 G5 box; other site 610130006337 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 610130006338 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 610130006339 Protein of unknown function (DUF512); Region: DUF512; pfam04459 610130006340 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 610130006341 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 610130006342 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130006343 active site 610130006344 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 610130006345 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 610130006346 hypothetical protein; Reviewed; Region: PRK12497 610130006347 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 610130006348 RNA/DNA hybrid binding site [nucleotide binding]; other site 610130006349 active site 610130006350 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 610130006351 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 610130006352 GTP/Mg2+ binding site [chemical binding]; other site 610130006353 G4 box; other site 610130006354 G5 box; other site 610130006355 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 610130006356 G1 box; other site 610130006357 G1 box; other site 610130006358 GTP/Mg2+ binding site [chemical binding]; other site 610130006359 Switch I region; other site 610130006360 G2 box; other site 610130006361 G2 box; other site 610130006362 G3 box; other site 610130006363 G3 box; other site 610130006364 Switch II region; other site 610130006365 Switch II region; other site 610130006366 G4 box; other site 610130006367 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 610130006368 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 610130006369 Catalytic site [active] 610130006370 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 610130006371 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 610130006372 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 610130006373 RimM N-terminal domain; Region: RimM; pfam01782 610130006374 PRC-barrel domain; Region: PRC; pfam05239 610130006375 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 610130006376 hypothetical protein; Provisional; Region: PRK00468 610130006377 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 610130006378 signal recognition particle protein; Provisional; Region: PRK10867 610130006379 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 610130006380 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 610130006381 P loop; other site 610130006382 GTP binding site [chemical binding]; other site 610130006383 Signal peptide binding domain; Region: SRP_SPB; pfam02978 610130006384 putative DNA-binding protein; Validated; Region: PRK00118 610130006385 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 610130006386 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 610130006387 TAP-like protein; Region: Abhydrolase_4; pfam08386 610130006388 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 610130006389 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 610130006390 dimer interface [polypeptide binding]; other site 610130006391 active site 610130006392 metal binding site [ion binding]; metal-binding site 610130006393 glutathione binding site [chemical binding]; other site 610130006394 seryl-tRNA synthetase; Provisional; Region: PRK05431 610130006395 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 610130006396 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 610130006397 motif 1; other site 610130006398 dimer interface [polypeptide binding]; other site 610130006399 active site 610130006400 motif 2; other site 610130006401 motif 3; other site 610130006402 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 610130006403 dimer interface [polypeptide binding]; other site 610130006404 pyridoxal binding site [chemical binding]; other site 610130006405 ATP binding site [chemical binding]; other site 610130006406 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 610130006407 Thiamine pyrophosphokinase; Region: TPK; cd07995 610130006408 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 610130006409 active site 610130006410 dimerization interface [polypeptide binding]; other site 610130006411 thiamine binding site [chemical binding]; other site 610130006412 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 610130006413 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 610130006414 substrate binding site [chemical binding]; other site 610130006415 hexamer interface [polypeptide binding]; other site 610130006416 metal binding site [ion binding]; metal-binding site 610130006417 GTPase RsgA; Reviewed; Region: PRK00098 610130006418 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 610130006419 RNA binding site [nucleotide binding]; other site 610130006420 homodimer interface [polypeptide binding]; other site 610130006421 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 610130006422 GTPase/Zn-binding domain interface [polypeptide binding]; other site 610130006423 GTP/Mg2+ binding site [chemical binding]; other site 610130006424 G4 box; other site 610130006425 G5 box; other site 610130006426 G1 box; other site 610130006427 Switch I region; other site 610130006428 G2 box; other site 610130006429 G3 box; other site 610130006430 Switch II region; other site 610130006431 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 610130006432 Catalytic domain of Protein Kinases; Region: PKc; cd00180 610130006433 active site 610130006434 ATP binding site [chemical binding]; other site 610130006435 substrate binding site [chemical binding]; other site 610130006436 activation loop (A-loop); other site 610130006437 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 610130006438 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 610130006439 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 610130006440 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 610130006441 active site 610130006442 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 610130006443 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 610130006444 FeS/SAM binding site; other site 610130006445 16S rRNA methyltransferase B; Provisional; Region: PRK14902 610130006446 NusB family; Region: NusB; pfam01029 610130006447 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 610130006448 S-adenosylmethionine binding site [chemical binding]; other site 610130006449 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 610130006450 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 610130006451 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 610130006452 putative active site [active] 610130006453 substrate binding site [chemical binding]; other site 610130006454 putative cosubstrate binding site; other site 610130006455 catalytic site [active] 610130006456 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 610130006457 substrate binding site [chemical binding]; other site 610130006458 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 610130006459 active site 610130006460 catalytic residues [active] 610130006461 metal binding site [ion binding]; metal-binding site 610130006462 primosome assembly protein PriA; Validated; Region: PRK05580 610130006463 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 610130006464 ATP binding site [chemical binding]; other site 610130006465 putative Mg++ binding site [ion binding]; other site 610130006466 helicase superfamily c-terminal domain; Region: HELICc; smart00490 610130006467 nucleotide binding region [chemical binding]; other site 610130006468 ATP-binding site [chemical binding]; other site 610130006469 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 610130006470 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 610130006471 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 610130006472 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 610130006473 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 610130006474 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 610130006475 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 610130006476 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 610130006477 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 610130006478 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 610130006479 Potassium binding sites [ion binding]; other site 610130006480 Cesium cation binding sites [ion binding]; other site 610130006481 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 610130006482 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 610130006483 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 610130006484 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 610130006485 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 610130006486 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 610130006487 active site 610130006488 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 610130006489 dimer interface [polypeptide binding]; other site 610130006490 Citrate synthase; Region: Citrate_synt; pfam00285 610130006491 active site 610130006492 citrylCoA binding site [chemical binding]; other site 610130006493 oxalacetate/citrate binding site [chemical binding]; other site 610130006494 coenzyme A binding site [chemical binding]; other site 610130006495 catalytic triad [active] 610130006496 putative hydratase; Provisional; Region: PRK11413 610130006497 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 610130006498 substrate binding site [chemical binding]; other site 610130006499 ligand binding site [chemical binding]; other site 610130006500 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 610130006501 substrate binding site [chemical binding]; other site 610130006502 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 610130006503 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 610130006504 intersubunit interface [polypeptide binding]; other site 610130006505 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 610130006506 Domain of unknown function (DUF364); Region: DUF364; pfam04016 610130006507 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 610130006508 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 610130006509 Walker A/P-loop; other site 610130006510 ATP binding site [chemical binding]; other site 610130006511 Q-loop/lid; other site 610130006512 ABC transporter signature motif; other site 610130006513 Walker B; other site 610130006514 D-loop; other site 610130006515 H-loop/switch region; other site 610130006516 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 610130006517 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 610130006518 ABC-ATPase subunit interface; other site 610130006519 dimer interface [polypeptide binding]; other site 610130006520 putative PBP binding regions; other site 610130006521 NTPase; Region: NTPase_1; cl17478 610130006522 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 610130006523 XdhC Rossmann domain; Region: XdhC_C; pfam13478 610130006524 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130006525 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130006526 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130006527 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130006528 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130006529 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130006530 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 610130006531 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130006532 Walker A/P-loop; other site 610130006533 ATP binding site [chemical binding]; other site 610130006534 Q-loop/lid; other site 610130006535 ABC transporter signature motif; other site 610130006536 Walker B; other site 610130006537 D-loop; other site 610130006538 H-loop/switch region; other site 610130006539 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130006540 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 610130006541 TM-ABC transporter signature motif; other site 610130006542 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 610130006543 zinc binding site [ion binding]; other site 610130006544 putative ligand binding site [chemical binding]; other site 610130006545 Uncharacterized conserved protein [Function unknown]; Region: COG1284 610130006546 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 610130006547 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 610130006548 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 610130006549 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 610130006550 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 610130006551 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 610130006552 EDD domain protein, DegV family; Region: DegV; TIGR00762 610130006553 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 610130006554 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130006555 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 610130006556 dimer interface [polypeptide binding]; other site 610130006557 phosphorylation site [posttranslational modification] 610130006558 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 610130006559 ATP binding site [chemical binding]; other site 610130006560 Mg2+ binding site [ion binding]; other site 610130006561 G-X-G motif; other site 610130006562 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130006563 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 610130006564 active site 610130006565 phosphorylation site [posttranslational modification] 610130006566 intermolecular recognition site; other site 610130006567 dimerization interface [polypeptide binding]; other site 610130006568 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 610130006569 DNA binding site [nucleotide binding] 610130006570 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 610130006571 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 610130006572 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 610130006573 PhoU domain; Region: PhoU; pfam01895 610130006574 PhoU domain; Region: PhoU; pfam01895 610130006575 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 610130006576 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 610130006577 active site 610130006578 dimer interface [polypeptide binding]; other site 610130006579 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 610130006580 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 610130006581 FtsX-like permease family; Region: FtsX; pfam02687 610130006582 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 610130006583 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 610130006584 Walker A/P-loop; other site 610130006585 ATP binding site [chemical binding]; other site 610130006586 Q-loop/lid; other site 610130006587 ABC transporter signature motif; other site 610130006588 Walker B; other site 610130006589 D-loop; other site 610130006590 H-loop/switch region; other site 610130006591 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 610130006592 HlyD family secretion protein; Region: HlyD_3; pfam13437 610130006593 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 610130006594 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 610130006595 lipoyl-biotinyl attachment site [posttranslational modification]; other site 610130006596 HlyD family secretion protein; Region: HlyD_3; pfam13437 610130006597 S-layer homology domain; Region: SLH; pfam00395 610130006598 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130006599 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 610130006600 active site 610130006601 phosphorylation site [posttranslational modification] 610130006602 intermolecular recognition site; other site 610130006603 dimerization interface [polypeptide binding]; other site 610130006604 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 610130006605 DNA binding site [nucleotide binding] 610130006606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130006607 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 610130006608 dimer interface [polypeptide binding]; other site 610130006609 phosphorylation site [posttranslational modification] 610130006610 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 610130006611 ATP binding site [chemical binding]; other site 610130006612 Mg2+ binding site [ion binding]; other site 610130006613 G-X-G motif; other site 610130006614 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 610130006615 synthetase active site [active] 610130006616 NTP binding site [chemical binding]; other site 610130006617 metal binding site [ion binding]; metal-binding site 610130006618 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 610130006619 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 610130006620 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 610130006621 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 610130006622 active site 610130006623 motif I; other site 610130006624 motif II; other site 610130006625 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 610130006626 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 610130006627 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 610130006628 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 610130006629 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 610130006630 active site 610130006631 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 610130006632 LrgB-like family; Region: LrgB; pfam04172 610130006633 CCCH-type Zn-finger protein [General function prediction only]; Region: CTH1; COG5063 610130006634 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 610130006635 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 610130006636 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130006637 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 610130006638 active site turn [active] 610130006639 phosphorylation site [posttranslational modification] 610130006640 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 610130006641 dimerization domain swap beta strand [polypeptide binding]; other site 610130006642 regulatory protein interface [polypeptide binding]; other site 610130006643 active site 610130006644 regulatory phosphorylation site [posttranslational modification]; other site 610130006645 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 610130006646 HPr interaction site; other site 610130006647 glycerol kinase (GK) interaction site [polypeptide binding]; other site 610130006648 active site 610130006649 phosphorylation site [posttranslational modification] 610130006650 transcriptional antiterminator BglG; Provisional; Region: PRK09772 610130006651 CAT RNA binding domain; Region: CAT_RBD; smart01061 610130006652 PRD domain; Region: PRD; pfam00874 610130006653 PRD domain; Region: PRD; pfam00874 610130006654 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130006655 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 610130006656 catalytic residues [active] 610130006657 catalytic nucleophile [active] 610130006658 Presynaptic Site I dimer interface [polypeptide binding]; other site 610130006659 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 610130006660 Synaptic Flat tetramer interface [polypeptide binding]; other site 610130006661 Synaptic Site I dimer interface [polypeptide binding]; other site 610130006662 DNA binding site [nucleotide binding] 610130006663 Recombinase; Region: Recombinase; pfam07508 610130006664 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130006665 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 610130006666 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 610130006667 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 610130006668 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 610130006669 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 610130006670 nickel binding site [ion binding]; other site 610130006671 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 610130006672 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 610130006673 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 610130006674 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 610130006675 FtsX-like permease family; Region: FtsX; pfam02687 610130006676 Predicted membrane protein [Function unknown]; Region: COG1470 610130006677 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 610130006678 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 610130006679 Walker A/P-loop; other site 610130006680 ATP binding site [chemical binding]; other site 610130006681 Q-loop/lid; other site 610130006682 ABC transporter signature motif; other site 610130006683 Walker B; other site 610130006684 D-loop; other site 610130006685 H-loop/switch region; other site 610130006686 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 610130006687 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 610130006688 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 610130006689 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 610130006690 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 610130006691 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 610130006692 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 610130006693 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 610130006694 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 610130006695 active site 610130006696 Uncharacterized conserved protein [Function unknown]; Region: COG0327 610130006697 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 610130006698 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 610130006699 Family of unknown function (DUF633); Region: DUF633; pfam04816 610130006700 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 610130006701 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 610130006702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130006703 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 610130006704 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 610130006705 DNA binding residues [nucleotide binding] 610130006706 DNA primase; Validated; Region: dnaG; PRK05667 610130006707 CHC2 zinc finger; Region: zf-CHC2; pfam01807 610130006708 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 610130006709 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 610130006710 active site 610130006711 metal binding site [ion binding]; metal-binding site 610130006712 interdomain interaction site; other site 610130006713 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 610130006714 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 610130006715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130006716 Zn2+ binding site [ion binding]; other site 610130006717 Mg2+ binding site [ion binding]; other site 610130006718 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 610130006719 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130006720 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130006721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130006722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130006723 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 610130006724 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130006725 active site 610130006726 catalytic triad [active] 610130006727 Stage II sporulation protein; Region: SpoIID; pfam08486 610130006728 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 610130006729 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 610130006730 Domain of unknown function DUF20; Region: UPF0118; pfam01594 610130006731 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 610130006732 Eukaryotic phosphomannomutase; Region: PMM; cl17107 610130006733 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 610130006734 motif II; other site 610130006735 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_HprK; cl00270 610130006736 active site 610130006737 metal-binding site [ion binding] 610130006738 nucleotide-binding site [chemical binding]; other site 610130006739 Domain of unknown function (DUF386); Region: DUF386; cl01047 610130006740 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 610130006741 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 610130006742 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 610130006743 putative deacylase active site [active] 610130006744 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 610130006745 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 610130006746 substrate binding site [chemical binding]; other site 610130006747 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 610130006748 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 610130006749 substrate binding site [chemical binding]; other site 610130006750 ligand binding site [chemical binding]; other site 610130006751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130006752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130006753 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 610130006754 dimerization interface [polypeptide binding]; other site 610130006755 ketol-acid reductoisomerase; Provisional; Region: PRK05479 610130006756 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 610130006757 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 610130006758 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 610130006759 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 610130006760 putative valine binding site [chemical binding]; other site 610130006761 dimer interface [polypeptide binding]; other site 610130006762 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 610130006763 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 610130006764 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 610130006765 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130006766 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130006767 active site 610130006768 metal binding site [ion binding]; metal-binding site 610130006769 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 610130006770 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130006771 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 610130006772 SmpB-tmRNA interface; other site 610130006773 ribonuclease R; Region: RNase_R; TIGR02063 610130006774 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 610130006775 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 610130006776 RNB domain; Region: RNB; pfam00773 610130006777 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...; Region: S1_RNase_R; cd04471 610130006778 RNA binding site [nucleotide binding]; other site 610130006779 Preprotein translocase SecG subunit; Region: SecG; pfam03840 610130006780 enolase; Provisional; Region: eno; PRK00077 610130006781 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 610130006782 metal binding site [ion binding]; metal-binding site 610130006783 substrate binding pocket [chemical binding]; other site 610130006784 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 610130006785 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 610130006786 putative tRNA-binding site [nucleotide binding]; other site 610130006787 B3/4 domain; Region: B3_4; pfam03483 610130006788 tRNA synthetase B5 domain; Region: B5; pfam03484 610130006789 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 610130006790 dimer interface [polypeptide binding]; other site 610130006791 motif 1; other site 610130006792 motif 3; other site 610130006793 motif 2; other site 610130006794 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 610130006795 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 610130006796 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 610130006797 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 610130006798 dimer interface [polypeptide binding]; other site 610130006799 motif 1; other site 610130006800 active site 610130006801 motif 2; other site 610130006802 motif 3; other site 610130006803 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 610130006804 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130006805 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130006806 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 610130006807 Walker A/P-loop; other site 610130006808 ATP binding site [chemical binding]; other site 610130006809 Q-loop/lid; other site 610130006810 ABC transporter signature motif; other site 610130006811 Walker B; other site 610130006812 D-loop; other site 610130006813 H-loop/switch region; other site 610130006814 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130006815 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130006816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130006817 Walker A/P-loop; other site 610130006818 ATP binding site [chemical binding]; other site 610130006819 Q-loop/lid; other site 610130006820 ABC transporter signature motif; other site 610130006821 Walker B; other site 610130006822 D-loop; other site 610130006823 H-loop/switch region; other site 610130006824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130006825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130006826 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 610130006827 dimerization interface [polypeptide binding]; other site 610130006828 Radical SAM superfamily; Region: Radical_SAM; pfam04055 610130006829 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 610130006830 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 610130006831 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 610130006832 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 610130006833 dimer interface [polypeptide binding]; other site 610130006834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130006835 catalytic residue [active] 610130006836 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 610130006837 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 610130006838 active site 610130006839 Zn binding site [ion binding]; other site 610130006840 5'-3' exonuclease; Region: 53EXOc; smart00475 610130006841 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 610130006842 active site 610130006843 metal binding site 1 [ion binding]; metal-binding site 610130006844 putative 5' ssDNA interaction site; other site 610130006845 metal binding site 3; metal-binding site 610130006846 metal binding site 2 [ion binding]; metal-binding site 610130006847 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 610130006848 putative DNA binding site [nucleotide binding]; other site 610130006849 putative metal binding site [ion binding]; other site 610130006850 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; cd00588 610130006851 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 610130006852 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 610130006853 active site 610130006854 Ap6A binding site [chemical binding]; other site 610130006855 nudix motif; other site 610130006856 metal binding site [ion binding]; metal-binding site 610130006857 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 610130006858 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 610130006859 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 610130006860 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 610130006861 Peptidase family U32; Region: Peptidase_U32; pfam01136 610130006862 Collagenase; Region: DUF3656; pfam12392 610130006863 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 610130006864 Peptidase family U32; Region: Peptidase_U32; cl03113 610130006865 Cell division protein ZapA; Region: ZapA; pfam05164 610130006866 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 610130006867 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 610130006868 Walker A motif; other site 610130006869 ATP binding site [chemical binding]; other site 610130006870 Walker B motif; other site 610130006871 arginine finger; other site 610130006872 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 610130006873 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 610130006874 RuvA N terminal domain; Region: RuvA_N; pfam01330 610130006875 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 610130006876 RNase_H superfamily; Region: RNase_H_2; pfam13482 610130006877 active site 610130006878 catalytic site [active] 610130006879 substrate binding site [chemical binding]; other site 610130006880 short chain dehydrogenase; Provisional; Region: PRK06701 610130006881 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 610130006882 NAD binding site [chemical binding]; other site 610130006883 metal binding site [ion binding]; metal-binding site 610130006884 active site 610130006885 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 610130006886 DNA-binding site [nucleotide binding]; DNA binding site 610130006887 RNA-binding motif; other site 610130006888 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 610130006889 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 610130006890 dimerization interface [polypeptide binding]; other site 610130006891 domain crossover interface; other site 610130006892 redox-dependent activation switch; other site 610130006893 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 610130006894 S-adenosylmethionine binding site [chemical binding]; other site 610130006895 hypothetical protein; Provisional; Region: PRK05590 610130006896 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 610130006897 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 610130006898 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 610130006899 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 610130006900 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 610130006901 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 610130006902 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 610130006903 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130006904 Walker A/P-loop; other site 610130006905 ATP binding site [chemical binding]; other site 610130006906 Q-loop/lid; other site 610130006907 ABC transporter signature motif; other site 610130006908 Walker B; other site 610130006909 D-loop; other site 610130006910 H-loop/switch region; other site 610130006911 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 610130006912 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 610130006913 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130006914 Walker A/P-loop; other site 610130006915 ATP binding site [chemical binding]; other site 610130006916 Q-loop/lid; other site 610130006917 ABC transporter signature motif; other site 610130006918 Walker B; other site 610130006919 D-loop; other site 610130006920 H-loop/switch region; other site 610130006921 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 610130006922 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 610130006923 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 610130006924 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 610130006925 dimer interface [polypeptide binding]; other site 610130006926 conserved gate region; other site 610130006927 putative PBP binding loops; other site 610130006928 ABC-ATPase subunit interface; other site 610130006929 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 610130006930 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 610130006931 dimer interface [polypeptide binding]; other site 610130006932 conserved gate region; other site 610130006933 putative PBP binding loops; other site 610130006934 ABC-ATPase subunit interface; other site 610130006935 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 610130006936 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 610130006937 peptide binding site [polypeptide binding]; other site 610130006938 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130006939 active site 610130006940 catalytic triad [active] 610130006941 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 610130006942 active site 610130006943 catalytic triad [active] 610130006944 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 610130006945 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 610130006946 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 610130006947 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 610130006948 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 610130006949 catalytic loop [active] 610130006950 iron binding site [ion binding]; other site 610130006951 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 610130006952 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 610130006953 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 610130006954 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 610130006955 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 610130006956 YIEGIA protein; Region: YIEGIA; pfam14045 610130006957 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 610130006958 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 610130006959 FeS/SAM binding site; other site 610130006960 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 610130006961 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 610130006962 DNA-binding site [nucleotide binding]; DNA binding site 610130006963 RNA-binding motif; other site 610130006964 thymidine kinase; Provisional; Region: PRK04296 610130006965 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 610130006966 putative FMN binding site [chemical binding]; other site 610130006967 6-phosphofructokinase; Provisional; Region: PRK14072 610130006968 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 610130006969 active site 610130006970 ADP/pyrophosphate binding site [chemical binding]; other site 610130006971 dimerization interface [polypeptide binding]; other site 610130006972 allosteric effector site; other site 610130006973 fructose-1,6-bisphosphate binding site; other site 610130006974 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 610130006975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130006976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130006977 metal binding site [ion binding]; metal-binding site 610130006978 active site 610130006979 I-site; other site 610130006980 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130006981 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130006982 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 610130006983 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130006984 putative ligand binding site [chemical binding]; other site 610130006985 Cache domain; Region: Cache_1; pfam02743 610130006986 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130006987 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 610130006988 dimerization interface [polypeptide binding]; other site 610130006989 Histidine kinase; Region: His_kinase; pfam06580 610130006990 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 610130006991 ATP binding site [chemical binding]; other site 610130006992 Mg2+ binding site [ion binding]; other site 610130006993 G-X-G motif; other site 610130006994 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130006995 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 610130006996 TM-ABC transporter signature motif; other site 610130006997 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130006998 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 610130006999 TM-ABC transporter signature motif; other site 610130007000 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130007001 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130007002 Walker A/P-loop; other site 610130007003 ATP binding site [chemical binding]; other site 610130007004 Q-loop/lid; other site 610130007005 ABC transporter signature motif; other site 610130007006 Walker B; other site 610130007007 D-loop; other site 610130007008 H-loop/switch region; other site 610130007009 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130007010 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 610130007011 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130007012 putative ligand binding site [chemical binding]; other site 610130007013 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130007014 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 610130007015 active site 610130007016 phosphorylation site [posttranslational modification] 610130007017 intermolecular recognition site; other site 610130007018 dimerization interface [polypeptide binding]; other site 610130007019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007021 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 610130007022 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130007023 DNA binding residues [nucleotide binding] 610130007024 drug binding residues [chemical binding]; other site 610130007025 dimer interface [polypeptide binding]; other site 610130007026 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 610130007027 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 610130007028 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 610130007029 active site 610130007030 motif I; other site 610130007031 motif II; other site 610130007032 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 610130007033 xanthine permease; Region: pbuX; TIGR03173 610130007034 DNA polymerase IV; Reviewed; Region: PRK03103 610130007035 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 610130007036 active site 610130007037 DNA binding site [nucleotide binding] 610130007038 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 610130007039 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 610130007040 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 610130007041 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 610130007042 Walker A/P-loop; other site 610130007043 ATP binding site [chemical binding]; other site 610130007044 Q-loop/lid; other site 610130007045 ABC transporter signature motif; other site 610130007046 Walker B; other site 610130007047 D-loop; other site 610130007048 H-loop/switch region; other site 610130007049 Predicted transcriptional regulators [Transcription]; Region: COG1695 610130007050 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 610130007051 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 610130007052 23S rRNA binding site [nucleotide binding]; other site 610130007053 L21 binding site [polypeptide binding]; other site 610130007054 L13 binding site [polypeptide binding]; other site 610130007055 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 610130007056 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 610130007057 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 610130007058 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 610130007059 Predicted membrane protein [Function unknown]; Region: COG2510 610130007060 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 610130007061 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 610130007062 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 610130007063 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 610130007064 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 610130007065 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 610130007066 motif 1; other site 610130007067 dimer interface [polypeptide binding]; other site 610130007068 active site 610130007069 motif 2; other site 610130007070 motif 3; other site 610130007071 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 610130007072 anticodon binding site; other site 610130007073 Membrane transport protein; Region: Mem_trans; cl09117 610130007074 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 610130007075 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 610130007076 homodimer interface [polypeptide binding]; other site 610130007077 substrate-cofactor binding pocket; other site 610130007078 catalytic residue [active] 610130007079 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 610130007080 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 610130007081 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 610130007082 motif II; other site 610130007083 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130007084 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130007085 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 610130007086 Ligand binding site; other site 610130007087 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 610130007088 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 610130007089 Ligand binding site; other site 610130007090 metal-binding site 610130007091 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 610130007092 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 610130007093 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 610130007094 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 610130007095 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 610130007096 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 610130007097 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 610130007098 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 610130007099 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 610130007100 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 610130007101 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 610130007102 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 610130007103 Domain of unknown function (DUF4318); Region: DUF4318; pfam14201 610130007104 LytTr DNA-binding domain; Region: LytTR; smart00850 610130007105 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 610130007106 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 610130007107 FeS/SAM binding site; other site 610130007108 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 610130007109 ATP cone domain; Region: ATP-cone; pfam03477 610130007110 Class III ribonucleotide reductase; Region: RNR_III; cd01675 610130007111 effector binding site; other site 610130007112 active site 610130007113 Zn binding site [ion binding]; other site 610130007114 glycine loop; other site 610130007115 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 610130007116 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 610130007117 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 610130007118 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 610130007119 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 610130007120 ATP binding site [chemical binding]; other site 610130007121 putative Mg++ binding site [ion binding]; other site 610130007122 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 610130007123 nucleotide binding region [chemical binding]; other site 610130007124 ATP-binding site [chemical binding]; other site 610130007125 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 610130007126 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 610130007127 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 610130007128 active site 610130007129 HIGH motif; other site 610130007130 nucleotide binding site [chemical binding]; other site 610130007131 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 610130007132 KMSK motif region; other site 610130007133 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 610130007134 tRNA binding surface [nucleotide binding]; other site 610130007135 anticodon binding site; other site 610130007136 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 610130007137 MgtC family; Region: MgtC; pfam02308 610130007138 putative hydrolase; Provisional; Region: PRK02113 610130007139 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 610130007140 Uncharacterized conserved protein [Function unknown]; Region: COG3379 610130007141 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 610130007142 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130007143 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 610130007144 dimer interface [polypeptide binding]; other site 610130007145 conserved gate region; other site 610130007146 putative PBP binding loops; other site 610130007147 ABC-ATPase subunit interface; other site 610130007148 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130007149 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 610130007150 dimer interface [polypeptide binding]; other site 610130007151 conserved gate region; other site 610130007152 putative PBP binding loops; other site 610130007153 ABC-ATPase subunit interface; other site 610130007154 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130007155 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130007156 Sulfatase; Region: Sulfatase; cl17466 610130007157 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 610130007158 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 610130007159 Transcriptional regulators [Transcription]; Region: MarR; COG1846 610130007160 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 610130007161 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 610130007162 nucleotide binding site [chemical binding]; other site 610130007163 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 610130007164 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130007165 putative substrate translocation pore; other site 610130007166 elongation factor P; Validated; Region: PRK00529 610130007167 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 610130007168 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 610130007169 RNA binding site [nucleotide binding]; other site 610130007170 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 610130007171 RNA binding site [nucleotide binding]; other site 610130007172 Dehydroquinase class II; Region: DHquinase_II; pfam01220 610130007173 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 610130007174 trimer interface [polypeptide binding]; other site 610130007175 active site 610130007176 dimer interface [polypeptide binding]; other site 610130007177 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 610130007178 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 610130007179 active site 610130007180 motif I; other site 610130007181 motif II; other site 610130007182 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 610130007183 ATP cone domain; Region: ATP-cone; pfam03477 610130007184 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 610130007185 Protein of unknown function (DUF975); Region: DUF975; cl10504 610130007186 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 610130007187 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 610130007188 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 610130007189 dimer interface [polypeptide binding]; other site 610130007190 conserved gate region; other site 610130007191 ABC-ATPase subunit interface; other site 610130007192 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 610130007193 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 610130007194 Walker A/P-loop; other site 610130007195 ATP binding site [chemical binding]; other site 610130007196 Q-loop/lid; other site 610130007197 ABC transporter signature motif; other site 610130007198 Walker B; other site 610130007199 D-loop; other site 610130007200 H-loop/switch region; other site 610130007201 NIL domain; Region: NIL; pfam09383 610130007202 dipeptidase PepV; Reviewed; Region: PRK07318 610130007203 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 610130007204 active site 610130007205 metal binding site [ion binding]; metal-binding site 610130007206 Yqey-like protein; Region: YqeY; cl17540 610130007207 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 610130007208 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 610130007209 G1 box; other site 610130007210 putative GEF interaction site [polypeptide binding]; other site 610130007211 GTP/Mg2+ binding site [chemical binding]; other site 610130007212 Switch I region; other site 610130007213 G2 box; other site 610130007214 G3 box; other site 610130007215 Switch II region; other site 610130007216 G4 box; other site 610130007217 G5 box; other site 610130007218 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 610130007219 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 610130007220 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 610130007221 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 610130007222 Flavoprotein; Region: Flavoprotein; pfam02441 610130007223 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 610130007224 Type III pantothenate kinase; Region: Pan_kinase; cl17198 610130007225 sporulation sigma factor SigG; Reviewed; Region: PRK08215 610130007226 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130007227 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 610130007228 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 610130007229 DNA binding residues [nucleotide binding] 610130007230 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 610130007231 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 610130007232 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 610130007233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130007234 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 610130007235 sporulation sigma factor SigE; Reviewed; Region: PRK08301 610130007236 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130007237 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 610130007238 DNA binding residues [nucleotide binding] 610130007239 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 610130007240 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 610130007241 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 610130007242 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 610130007243 active site 610130007244 HIGH motif; other site 610130007245 nucleotide binding site [chemical binding]; other site 610130007246 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 610130007247 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 610130007248 active site 610130007249 KMSKS motif; other site 610130007250 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 610130007251 tRNA binding surface [nucleotide binding]; other site 610130007252 anticodon binding site; other site 610130007253 TPR repeat; Region: TPR_11; pfam13414 610130007254 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 610130007255 binding surface 610130007256 TPR motif; other site 610130007257 Cytokinin dehydrogenase 1, FAD and cytokinin binding; Region: Cytokin-bind; pfam09265 610130007258 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 610130007259 Malic enzyme, N-terminal domain; Region: malic; pfam00390 610130007260 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 610130007261 putative NAD(P) binding site [chemical binding]; other site 610130007262 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 610130007263 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 610130007264 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 610130007265 Walker A/P-loop; other site 610130007266 ATP binding site [chemical binding]; other site 610130007267 Q-loop/lid; other site 610130007268 ABC transporter signature motif; other site 610130007269 Walker B; other site 610130007270 D-loop; other site 610130007271 H-loop/switch region; other site 610130007272 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 610130007273 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 610130007274 dimer interface [polypeptide binding]; other site 610130007275 conserved gate region; other site 610130007276 putative PBP binding loops; other site 610130007277 ABC-ATPase subunit interface; other site 610130007278 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 610130007279 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 610130007280 substrate binding pocket [chemical binding]; other site 610130007281 membrane-bound complex binding site; other site 610130007282 hinge residues; other site 610130007283 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 610130007284 G1 box; other site 610130007285 GTP/Mg2+ binding site [chemical binding]; other site 610130007286 Switch I region; other site 610130007287 G2 box; other site 610130007288 G3 box; other site 610130007289 Switch II region; other site 610130007290 G4 box; other site 610130007291 G5 box; other site 610130007292 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 610130007293 Found in ATP-dependent protease La (LON); Region: LON; smart00464 610130007294 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 610130007295 Walker A motif; other site 610130007296 ATP binding site [chemical binding]; other site 610130007297 Walker B motif; other site 610130007298 arginine finger; other site 610130007299 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 610130007300 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 610130007301 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 610130007302 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 610130007303 Walker A motif; other site 610130007304 ATP binding site [chemical binding]; other site 610130007305 Walker B motif; other site 610130007306 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 610130007307 Clp protease; Region: CLP_protease; pfam00574 610130007308 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 610130007309 oligomer interface [polypeptide binding]; other site 610130007310 active site residues [active] 610130007311 trigger factor; Provisional; Region: tig; PRK01490 610130007312 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 610130007313 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 610130007314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130007315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130007316 metal binding site [ion binding]; metal-binding site 610130007317 active site 610130007318 I-site; other site 610130007319 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 610130007320 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130007321 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130007322 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130007323 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 610130007324 putative active site [active] 610130007325 putative metal binding residues [ion binding]; other site 610130007326 signature motif; other site 610130007327 putative dimer interface [polypeptide binding]; other site 610130007328 putative phosphate binding site [ion binding]; other site 610130007329 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130007330 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 610130007331 TM-ABC transporter signature motif; other site 610130007332 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130007333 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130007334 Walker A/P-loop; other site 610130007335 ATP binding site [chemical binding]; other site 610130007336 Q-loop/lid; other site 610130007337 ABC transporter signature motif; other site 610130007338 Walker B; other site 610130007339 D-loop; other site 610130007340 H-loop/switch region; other site 610130007341 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130007342 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 610130007343 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130007344 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 610130007345 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130007346 ligand binding site [chemical binding]; other site 610130007347 calcium binding site [ion binding]; other site 610130007348 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 610130007349 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130007350 ligand binding site [chemical binding]; other site 610130007351 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130007352 Cache domain; Region: Cache_1; pfam02743 610130007353 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 610130007354 dimerization interface [polypeptide binding]; other site 610130007355 Histidine kinase; Region: His_kinase; pfam06580 610130007356 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 610130007357 ATP binding site [chemical binding]; other site 610130007358 Mg2+ binding site [ion binding]; other site 610130007359 G-X-G motif; other site 610130007360 Response regulator receiver domain; Region: Response_reg; pfam00072 610130007361 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 610130007362 active site 610130007363 phosphorylation site [posttranslational modification] 610130007364 intermolecular recognition site; other site 610130007365 dimerization interface [polypeptide binding]; other site 610130007366 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007367 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130007368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007369 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 610130007370 Precorrin-8X methylmutase; Region: CbiC; pfam02570 610130007371 cobyric acid synthase; Provisional; Region: PRK00784 610130007372 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 610130007373 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 610130007374 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 610130007375 catalytic triad [active] 610130007376 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 610130007377 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 610130007378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130007379 homodimer interface [polypeptide binding]; other site 610130007380 catalytic residue [active] 610130007381 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 610130007382 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 610130007383 cobalamin synthase; Reviewed; Region: cobS; PRK00235 610130007384 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 610130007385 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 610130007386 Metal-binding active site; metal-binding site 610130007387 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 610130007388 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130007389 putative substrate translocation pore; other site 610130007390 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130007391 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 610130007392 dimer interface [polypeptide binding]; other site 610130007393 conserved gate region; other site 610130007394 putative PBP binding loops; other site 610130007395 ABC-ATPase subunit interface; other site 610130007396 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130007397 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 610130007398 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130007399 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130007400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130007401 Histidine kinase; Region: His_kinase; pfam06580 610130007402 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 610130007403 ATP binding site [chemical binding]; other site 610130007404 Mg2+ binding site [ion binding]; other site 610130007405 G-X-G motif; other site 610130007406 Response regulator receiver domain; Region: Response_reg; pfam00072 610130007407 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 610130007408 active site 610130007409 phosphorylation site [posttranslational modification] 610130007410 intermolecular recognition site; other site 610130007411 dimerization interface [polypeptide binding]; other site 610130007412 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130007413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007414 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 610130007415 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130007416 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 610130007417 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 610130007418 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 610130007419 G1 box; other site 610130007420 GTP/Mg2+ binding site [chemical binding]; other site 610130007421 Switch I region; other site 610130007422 G2 box; other site 610130007423 Switch II region; other site 610130007424 G3 box; other site 610130007425 G4 box; other site 610130007426 G5 box; other site 610130007427 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 610130007428 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; cl15377 610130007429 FeS/SAM binding site; other site 610130007430 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 610130007431 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 610130007432 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 610130007433 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 610130007434 active site 610130007435 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130007436 putative substrate translocation pore; other site 610130007437 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 610130007438 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130007439 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130007440 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 610130007441 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 610130007442 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 610130007443 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 610130007444 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 610130007445 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130007446 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 610130007447 dimer interface [polypeptide binding]; other site 610130007448 conserved gate region; other site 610130007449 putative PBP binding loops; other site 610130007450 ABC-ATPase subunit interface; other site 610130007451 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130007452 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 610130007453 dimer interface [polypeptide binding]; other site 610130007454 conserved gate region; other site 610130007455 putative PBP binding loops; other site 610130007456 ABC-ATPase subunit interface; other site 610130007457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130007458 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 610130007459 dimerization interface [polypeptide binding]; other site 610130007460 Histidine kinase; Region: His_kinase; pfam06580 610130007461 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 610130007462 ATP binding site [chemical binding]; other site 610130007463 Mg2+ binding site [ion binding]; other site 610130007464 G-X-G motif; other site 610130007465 Response regulator receiver domain; Region: Response_reg; pfam00072 610130007466 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 610130007467 active site 610130007468 phosphorylation site [posttranslational modification] 610130007469 intermolecular recognition site; other site 610130007470 dimerization interface [polypeptide binding]; other site 610130007471 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130007472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007473 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 610130007474 homotrimer interface [polypeptide binding]; other site 610130007475 Walker A motif; other site 610130007476 GTP binding site [chemical binding]; other site 610130007477 Walker B motif; other site 610130007478 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 610130007479 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 610130007480 putative dimer interface [polypeptide binding]; other site 610130007481 active site pocket [active] 610130007482 putative cataytic base [active] 610130007483 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 610130007484 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 610130007485 catalytic triad [active] 610130007486 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 610130007487 active site 610130007488 SAM binding site [chemical binding]; other site 610130007489 homodimer interface [polypeptide binding]; other site 610130007490 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 610130007491 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 610130007492 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 610130007493 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 610130007494 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 610130007495 active site 610130007496 SAM binding site [chemical binding]; other site 610130007497 homodimer interface [polypeptide binding]; other site 610130007498 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 610130007499 active site 610130007500 SAM binding site [chemical binding]; other site 610130007501 homodimer interface [polypeptide binding]; other site 610130007502 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 610130007503 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 610130007504 PspC domain; Region: PspC; pfam04024 610130007505 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 610130007506 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 610130007507 Predicted membrane protein [Function unknown]; Region: COG4709 610130007508 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 610130007509 Predicted transcriptional regulators [Transcription]; Region: COG1695 610130007510 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 610130007511 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 610130007512 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 610130007513 Response regulator receiver domain; Region: Response_reg; pfam00072 610130007514 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 610130007515 active site 610130007516 phosphorylation site [posttranslational modification] 610130007517 intermolecular recognition site; other site 610130007518 dimerization interface [polypeptide binding]; other site 610130007519 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007520 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130007521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130007523 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 610130007524 dimerization interface [polypeptide binding]; other site 610130007525 Histidine kinase; Region: His_kinase; pfam06580 610130007526 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 610130007527 ATP binding site [chemical binding]; other site 610130007528 Mg2+ binding site [ion binding]; other site 610130007529 G-X-G motif; other site 610130007530 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 610130007531 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 610130007532 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 610130007533 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 610130007534 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 610130007535 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 610130007536 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 610130007537 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 610130007538 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 610130007539 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 610130007540 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 610130007541 TrkA-N domain; Region: TrkA_N; pfam02254 610130007542 TrkA-C domain; Region: TrkA_C; pfam02080 610130007543 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 610130007544 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 610130007545 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 610130007546 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 610130007547 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 610130007548 motif II; other site 610130007549 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 610130007550 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 610130007551 active site 610130007552 phosphorylation site [posttranslational modification] 610130007553 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 610130007554 active site 610130007555 P-loop; other site 610130007556 phosphorylation site [posttranslational modification] 610130007557 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 610130007558 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 610130007559 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 610130007560 putative substrate binding site [chemical binding]; other site 610130007561 putative ATP binding site [chemical binding]; other site 610130007562 Cache domain; Region: Cache_1; pfam02743 610130007563 HAMP domain; Region: HAMP; pfam00672 610130007564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130007565 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130007566 dimer interface [polypeptide binding]; other site 610130007567 putative CheW interface [polypeptide binding]; other site 610130007568 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130007569 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130007570 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 610130007571 putative active site [active] 610130007572 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130007573 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 610130007574 putative active site [active] 610130007575 putative metal binding site [ion binding]; other site 610130007576 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130007577 active site 610130007578 metal binding site [ion binding]; metal-binding site 610130007579 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 610130007580 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 610130007581 S-adenosylmethionine binding site [chemical binding]; other site 610130007582 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 610130007583 EamA-like transporter family; Region: EamA; pfam00892 610130007584 EamA-like transporter family; Region: EamA; pfam00892 610130007585 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 610130007586 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 610130007587 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130007588 RibD C-terminal domain; Region: RibD_C; cl17279 610130007589 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 610130007590 enolase; Provisional; Region: eno; PRK00077 610130007591 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 610130007592 dimer interface [polypeptide binding]; other site 610130007593 metal binding site [ion binding]; metal-binding site 610130007594 substrate binding pocket [chemical binding]; other site 610130007595 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 610130007596 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 610130007597 active site 610130007598 HIGH motif; other site 610130007599 dimer interface [polypeptide binding]; other site 610130007600 KMSKS motif; other site 610130007601 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 610130007602 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 610130007603 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 610130007604 substrate binding pocket [chemical binding]; other site 610130007605 dimer interface [polypeptide binding]; other site 610130007606 inhibitor binding site; inhibition site 610130007607 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 610130007608 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 610130007609 B12 binding site [chemical binding]; other site 610130007610 cobalt ligand [ion binding]; other site 610130007611 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 610130007612 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 610130007613 FAD binding site [chemical binding]; other site 610130007614 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; cl17315 610130007615 DNA binding residues [nucleotide binding] 610130007616 cell division protein FtsZ; Region: ftsZ; TIGR00065 610130007617 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 610130007618 nucleotide binding site [chemical binding]; other site 610130007619 SulA interaction site; other site 610130007620 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 610130007621 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 610130007622 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 610130007623 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 610130007624 hinge; other site 610130007625 active site 610130007626 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 610130007627 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 610130007628 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 610130007629 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 610130007630 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 610130007631 Mg++ binding site [ion binding]; other site 610130007632 putative catalytic motif [active] 610130007633 putative substrate binding site [chemical binding]; other site 610130007634 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 610130007635 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 610130007636 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 610130007637 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 610130007638 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 610130007639 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 610130007640 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 610130007641 Cell division protein FtsL; Region: FtsL; cl11433 610130007642 MraW methylase family; Region: Methyltransf_5; pfam01795 610130007643 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 610130007644 cell division protein MraZ; Reviewed; Region: PRK00326 610130007645 MraZ protein; Region: MraZ; pfam02381 610130007646 MraZ protein; Region: MraZ; pfam02381 610130007647 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130007648 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 610130007649 TM-ABC transporter signature motif; other site 610130007650 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 610130007651 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130007652 TM-ABC transporter signature motif; other site 610130007653 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 610130007654 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130007655 Walker A/P-loop; other site 610130007656 ATP binding site [chemical binding]; other site 610130007657 Q-loop/lid; other site 610130007658 ABC transporter signature motif; other site 610130007659 Walker B; other site 610130007660 D-loop; other site 610130007661 H-loop/switch region; other site 610130007662 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130007663 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 610130007664 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 610130007665 ligand binding site [chemical binding]; other site 610130007666 Response regulator receiver domain; Region: Response_reg; pfam00072 610130007667 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 610130007668 active site 610130007669 phosphorylation site [posttranslational modification] 610130007670 intermolecular recognition site; other site 610130007671 dimerization interface [polypeptide binding]; other site 610130007672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007673 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130007674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007675 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130007676 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 610130007677 dimerization interface [polypeptide binding]; other site 610130007678 Histidine kinase; Region: His_kinase; pfam06580 610130007679 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 610130007680 ATP binding site [chemical binding]; other site 610130007681 Mg2+ binding site [ion binding]; other site 610130007682 G-X-G motif; other site 610130007683 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 610130007684 GTP-binding protein YchF; Reviewed; Region: PRK09601 610130007685 YchF GTPase; Region: YchF; cd01900 610130007686 G1 box; other site 610130007687 GTP/Mg2+ binding site [chemical binding]; other site 610130007688 Switch I region; other site 610130007689 G2 box; other site 610130007690 Switch II region; other site 610130007691 G3 box; other site 610130007692 G4 box; other site 610130007693 G5 box; other site 610130007694 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 610130007695 Accessory gene regulator B; Region: AgrB; pfam04647 610130007696 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 610130007697 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 610130007698 ATP binding site [chemical binding]; other site 610130007699 Mg2+ binding site [ion binding]; other site 610130007700 G-X-G motif; other site 610130007701 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130007702 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 610130007703 active site 610130007704 phosphorylation site [posttranslational modification] 610130007705 intermolecular recognition site; other site 610130007706 dimerization interface [polypeptide binding]; other site 610130007707 LytTr DNA-binding domain; Region: LytTR; pfam04397 610130007708 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 610130007709 Transposase IS200 like; Region: Y1_Tnp; pfam01797 610130007710 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 610130007711 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130007712 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 610130007713 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 610130007714 active site 610130007715 dimer interface [polypeptide binding]; other site 610130007716 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 610130007717 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 610130007718 active site 610130007719 FMN binding site [chemical binding]; other site 610130007720 substrate binding site [chemical binding]; other site 610130007721 3Fe-4S cluster binding site [ion binding]; other site 610130007722 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 610130007723 domain interface; other site 610130007724 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 610130007725 dimerization domain swap beta strand [polypeptide binding]; other site 610130007726 regulatory protein interface [polypeptide binding]; other site 610130007727 active site 610130007728 regulatory phosphorylation site [posttranslational modification]; other site 610130007729 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 610130007730 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 610130007731 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 610130007732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130007733 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 610130007734 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 610130007735 DNA binding residues [nucleotide binding] 610130007736 putative lipid kinase; Reviewed; Region: PRK13337 610130007737 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 610130007738 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 610130007739 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 610130007740 minor groove reading motif; other site 610130007741 helix-hairpin-helix signature motif; other site 610130007742 substrate binding pocket [chemical binding]; other site 610130007743 active site 610130007744 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 610130007745 DNA binding and oxoG recognition site [nucleotide binding] 610130007746 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 610130007747 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130007748 DNA-binding site [nucleotide binding]; DNA binding site 610130007749 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 610130007750 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 610130007751 ornithine carbamoyltransferase; Validated; Region: PRK02102 610130007752 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 610130007753 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 610130007754 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 610130007755 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 610130007756 active site 610130007757 nucleophile elbow; other site 610130007758 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 610130007759 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 610130007760 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 610130007761 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 610130007762 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 610130007763 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 610130007764 NAD synthetase; Reviewed; Region: nadE; PRK02628 610130007765 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 610130007766 multimer interface [polypeptide binding]; other site 610130007767 active site 610130007768 catalytic triad [active] 610130007769 protein interface 1 [polypeptide binding]; other site 610130007770 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 610130007771 homodimer interface [polypeptide binding]; other site 610130007772 NAD binding pocket [chemical binding]; other site 610130007773 ATP binding pocket [chemical binding]; other site 610130007774 Mg binding site [ion binding]; other site 610130007775 active-site loop [active] 610130007776 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130007777 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 610130007778 Predicted transcriptional regulator [Transcription]; Region: COG1959 610130007779 Transcriptional regulator; Region: Rrf2; cl17282 610130007780 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 610130007781 PAS fold; Region: PAS_3; pfam08447 610130007782 putative active site [active] 610130007783 heme pocket [chemical binding]; other site 610130007784 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130007785 Zn2+ binding site [ion binding]; other site 610130007786 Mg2+ binding site [ion binding]; other site 610130007787 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 610130007788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130007789 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 610130007790 Na2 binding site [ion binding]; other site 610130007791 putative substrate binding site 1 [chemical binding]; other site 610130007792 Na binding site 1 [ion binding]; other site 610130007793 putative substrate binding site 2 [chemical binding]; other site 610130007794 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 610130007795 ATP cone domain; Region: ATP-cone; pfam03477 610130007796 Class III ribonucleotide reductase; Region: RNR_III; cd01675 610130007797 effector binding site; other site 610130007798 active site 610130007799 Zn binding site [ion binding]; other site 610130007800 glycine loop; other site 610130007801 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 610130007802 catalytic residues [active] 610130007803 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 610130007804 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 610130007805 HflX GTPase family; Region: HflX; cd01878 610130007806 G1 box; other site 610130007807 GTP/Mg2+ binding site [chemical binding]; other site 610130007808 Switch I region; other site 610130007809 G2 box; other site 610130007810 G3 box; other site 610130007811 Switch II region; other site 610130007812 G4 box; other site 610130007813 G5 box; other site 610130007814 TPR repeat; Region: TPR_11; pfam13414 610130007815 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 610130007816 binding surface 610130007817 TPR motif; other site 610130007818 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 610130007819 binding surface 610130007820 TPR repeat; Region: TPR_11; pfam13414 610130007821 TPR motif; other site 610130007822 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 610130007823 trimer interface [polypeptide binding]; other site 610130007824 active site 610130007825 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 610130007826 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 610130007827 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 610130007828 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130007829 putative active site [active] 610130007830 putative metal binding site [ion binding]; other site 610130007831 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 610130007832 non-specific DNA binding site [nucleotide binding]; other site 610130007833 salt bridge; other site 610130007834 sequence-specific DNA binding site [nucleotide binding]; other site 610130007835 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 610130007836 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 610130007837 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 610130007838 nudix motif; other site 610130007839 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 610130007840 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 610130007841 active site 610130007842 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 610130007843 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 610130007844 active site 610130007845 CAAX protease self-immunity; Region: Abi; pfam02517 610130007846 carbamate kinase; Reviewed; Region: PRK12686 610130007847 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 610130007848 putative substrate binding site [chemical binding]; other site 610130007849 nucleotide binding site [chemical binding]; other site 610130007850 nucleotide binding site [chemical binding]; other site 610130007851 homodimer interface [polypeptide binding]; other site 610130007852 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 610130007853 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 610130007854 NodB motif; other site 610130007855 active site 610130007856 catalytic site [active] 610130007857 Cd binding site [ion binding]; other site 610130007858 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 610130007859 putative transporter; Provisional; Region: PRK11660 610130007860 Sulfate transporter family; Region: Sulfate_transp; pfam00916 610130007861 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 610130007862 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 610130007863 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 610130007864 ligand binding site [chemical binding]; other site 610130007865 flexible hinge region; other site 610130007866 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 610130007867 non-specific DNA interactions [nucleotide binding]; other site 610130007868 DNA binding site [nucleotide binding] 610130007869 sequence specific DNA binding site [nucleotide binding]; other site 610130007870 putative cAMP binding site [chemical binding]; other site 610130007871 Restriction endonuclease FokI, recognition domain; Region: FokI_N; pfam02981 610130007872 Restriction endonuclease FokI, catalytic domain; Region: FokI_C; pfam02980 610130007873 Restriction endonuclease FokI, C terminal; Region: Endonuc-FokI_C; pfam09254 610130007874 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 610130007875 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 610130007876 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 610130007877 non-heme iron binding site [ion binding]; other site 610130007878 dimer interface [polypeptide binding]; other site 610130007879 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 610130007880 non-heme iron binding site [ion binding]; other site 610130007881 Response regulator receiver domain; Region: Response_reg; pfam00072 610130007882 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 610130007883 active site 610130007884 phosphorylation site [posttranslational modification] 610130007885 intermolecular recognition site; other site 610130007886 dimerization interface [polypeptide binding]; other site 610130007887 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007888 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130007889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130007890 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130007891 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 610130007892 dimerization interface [polypeptide binding]; other site 610130007893 Histidine kinase; Region: His_kinase; pfam06580 610130007894 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 610130007895 ATP binding site [chemical binding]; other site 610130007896 Mg2+ binding site [ion binding]; other site 610130007897 G-X-G motif; other site 610130007898 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 610130007899 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130007900 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 610130007901 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 610130007902 active site 610130007903 substrate binding site [chemical binding]; other site 610130007904 metal binding site [ion binding]; metal-binding site 610130007905 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 610130007906 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 610130007907 dimer interface [polypeptide binding]; other site 610130007908 conserved gate region; other site 610130007909 putative PBP binding loops; other site 610130007910 ABC-ATPase subunit interface; other site 610130007911 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 610130007912 dimer interface [polypeptide binding]; other site 610130007913 conserved gate region; other site 610130007914 putative PBP binding loops; other site 610130007915 ABC-ATPase subunit interface; other site 610130007916 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 610130007917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130007918 Walker A/P-loop; other site 610130007919 ATP binding site [chemical binding]; other site 610130007920 Q-loop/lid; other site 610130007921 ABC transporter signature motif; other site 610130007922 Walker B; other site 610130007923 D-loop; other site 610130007924 H-loop/switch region; other site 610130007925 TOBE domain; Region: TOBE_2; pfam08402 610130007926 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130007927 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 610130007928 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130007929 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130007930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130007931 Walker A/P-loop; other site 610130007932 ATP binding site [chemical binding]; other site 610130007933 Q-loop/lid; other site 610130007934 ABC transporter signature motif; other site 610130007935 Walker B; other site 610130007936 D-loop; other site 610130007937 H-loop/switch region; other site 610130007938 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130007939 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130007940 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130007941 Walker A/P-loop; other site 610130007942 ATP binding site [chemical binding]; other site 610130007943 Q-loop/lid; other site 610130007944 ABC transporter signature motif; other site 610130007945 Walker B; other site 610130007946 D-loop; other site 610130007947 H-loop/switch region; other site 610130007948 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130007949 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130007950 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 610130007951 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 610130007952 substrate binding pocket [chemical binding]; other site 610130007953 membrane-bound complex binding site; other site 610130007954 hinge residues; other site 610130007955 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 610130007956 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 610130007957 Walker A/P-loop; other site 610130007958 ATP binding site [chemical binding]; other site 610130007959 Q-loop/lid; other site 610130007960 ABC transporter signature motif; other site 610130007961 Walker B; other site 610130007962 D-loop; other site 610130007963 H-loop/switch region; other site 610130007964 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 610130007965 dimer interface [polypeptide binding]; other site 610130007966 conserved gate region; other site 610130007967 ABC-ATPase subunit interface; other site 610130007968 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 610130007969 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 610130007970 dimer interface [polypeptide binding]; other site 610130007971 conserved gate region; other site 610130007972 putative PBP binding loops; other site 610130007973 ABC-ATPase subunit interface; other site 610130007974 Cache domain; Region: Cache_1; pfam02743 610130007975 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 610130007976 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 610130007977 dimerization interface [polypeptide binding]; other site 610130007978 PAS domain S-box; Region: sensory_box; TIGR00229 610130007979 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 610130007980 putative active site [active] 610130007981 heme pocket [chemical binding]; other site 610130007982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130007983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130007984 metal binding site [ion binding]; metal-binding site 610130007985 active site 610130007986 I-site; other site 610130007987 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130007988 Zn2+ binding site [ion binding]; other site 610130007989 Mg2+ binding site [ion binding]; other site 610130007990 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 610130007991 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 610130007992 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 610130007993 active site residue [active] 610130007994 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 610130007995 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 610130007996 Ligand Binding Site [chemical binding]; other site 610130007997 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 610130007998 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 610130007999 putative ATP binding site [chemical binding]; other site 610130008000 putative substrate interface [chemical binding]; other site 610130008001 Hemerythrin-like domain; Region: Hr-like; cd12108 610130008002 Fe binding site [ion binding]; other site 610130008003 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 610130008004 hybrid cluster protein; Provisional; Region: PRK05290 610130008005 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 610130008006 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 610130008007 ACS interaction site; other site 610130008008 CODH interaction site; other site 610130008009 metal cluster binding site [ion binding]; other site 610130008010 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 610130008011 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 610130008012 ligand binding site [chemical binding]; other site 610130008013 flexible hinge region; other site 610130008014 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 610130008015 4Fe-4S binding domain; Region: Fer4_6; pfam12837 610130008016 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130008017 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 610130008018 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 610130008019 dimerization interface [polypeptide binding]; other site 610130008020 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130008021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130008022 dimer interface [polypeptide binding]; other site 610130008023 putative CheW interface [polypeptide binding]; other site 610130008024 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 610130008025 fructuronate transporter; Provisional; Region: PRK10034; cl15264 610130008026 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 610130008027 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 610130008028 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 610130008029 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 610130008030 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 610130008031 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 610130008032 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 610130008033 Walker A motif; other site 610130008034 ATP binding site [chemical binding]; other site 610130008035 Walker B motif; other site 610130008036 arginine finger; other site 610130008037 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 610130008038 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130008039 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130008040 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 610130008041 phosphate binding site [ion binding]; other site 610130008042 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 610130008043 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 610130008044 active site 610130008045 P-loop; other site 610130008046 phosphorylation site [posttranslational modification] 610130008047 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130008048 HTH domain; Region: HTH_11; pfam08279 610130008049 HTH domain; Region: HTH_11; pfam08279 610130008050 PRD domain; Region: PRD; pfam00874 610130008051 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 610130008052 active site 610130008053 P-loop; other site 610130008054 phosphorylation site [posttranslational modification] 610130008055 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 610130008056 active site 610130008057 phosphorylation site [posttranslational modification] 610130008058 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 610130008059 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 610130008060 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 610130008061 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 610130008062 active site 610130008063 Uncharacterized conserved protein [Function unknown]; Region: COG5476 610130008064 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 610130008065 MlrC C-terminus; Region: MlrC_C; pfam07171 610130008066 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 610130008067 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 610130008068 active site turn [active] 610130008069 phosphorylation site [posttranslational modification] 610130008070 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130008071 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 610130008072 beta-galactosidase; Region: BGL; TIGR03356 610130008073 Protein of unknown function (DUF454); Region: DUF454; cl01063 610130008074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130008075 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 610130008076 dimerization interface [polypeptide binding]; other site 610130008077 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 610130008078 dimer interface [polypeptide binding]; other site 610130008079 phosphorylation site [posttranslational modification] 610130008080 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 610130008081 ATP binding site [chemical binding]; other site 610130008082 Mg2+ binding site [ion binding]; other site 610130008083 G-X-G motif; other site 610130008084 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130008085 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 610130008086 active site 610130008087 phosphorylation site [posttranslational modification] 610130008088 intermolecular recognition site; other site 610130008089 dimerization interface [polypeptide binding]; other site 610130008090 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 610130008091 DNA binding site [nucleotide binding] 610130008092 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 610130008093 metal-binding site [ion binding] 610130008094 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 610130008095 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 610130008096 metal-binding site [ion binding] 610130008097 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 610130008098 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 610130008099 metal-binding site [ion binding] 610130008100 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 610130008101 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 610130008102 motif II; other site 610130008103 Predicted transcriptional regulators [Transcription]; Region: COG1733 610130008104 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 610130008105 Helix-turn-helix domain; Region: HTH_38; pfam13936 610130008106 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 610130008107 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 610130008108 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 610130008109 metal-binding site [ion binding] 610130008110 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 610130008111 Family description; Region: DsbD_2; pfam13386 610130008112 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 610130008113 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 610130008114 Hemerythrin; Region: Hemerythrin; cd12107 610130008115 Fe binding site [ion binding]; other site 610130008116 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 610130008117 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 610130008118 ADP binding site [chemical binding]; other site 610130008119 magnesium binding site [ion binding]; other site 610130008120 putative shikimate binding site; other site 610130008121 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 610130008122 dimerization interface [polypeptide binding]; other site 610130008123 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130008124 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130008125 dimer interface [polypeptide binding]; other site 610130008126 putative CheW interface [polypeptide binding]; other site 610130008127 Uncharacterized conserved protein [Function unknown]; Region: COG2461 610130008128 Family of unknown function (DUF438); Region: DUF438; pfam04282 610130008129 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 610130008130 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 610130008131 hybrid cluster protein; Provisional; Region: PRK05290 610130008132 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 610130008133 ACS interaction site; other site 610130008134 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 610130008135 ACS interaction site; other site 610130008136 CODH interaction site; other site 610130008137 metal cluster binding site [ion binding]; other site 610130008138 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 610130008139 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 610130008140 active site 610130008141 metal-binding site 610130008142 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 610130008143 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 610130008144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130008145 homodimer interface [polypeptide binding]; other site 610130008146 catalytic residue [active] 610130008147 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 610130008148 Methyltransferase domain; Region: Methyltransf_31; pfam13847 610130008149 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 610130008150 S-adenosylmethionine binding site [chemical binding]; other site 610130008151 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130008152 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 610130008153 active site 610130008154 phosphorylation site [posttranslational modification] 610130008155 intermolecular recognition site; other site 610130008156 dimerization interface [polypeptide binding]; other site 610130008157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130008158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130008159 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 610130008160 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130008161 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130008162 active site 610130008163 metal binding site [ion binding]; metal-binding site 610130008164 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 610130008165 substrate binding site [chemical binding]; other site 610130008166 catalytic residues [active] 610130008167 Right handed beta helix region; Region: Beta_helix; pfam13229 610130008168 Right handed beta helix region; Region: Beta_helix; pfam13229 610130008169 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 610130008170 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 610130008171 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130008172 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 610130008173 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 610130008174 Coenzyme A binding pocket [chemical binding]; other site 610130008175 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 610130008176 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 610130008177 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 610130008178 shikimate binding site; other site 610130008179 NAD(P) binding site [chemical binding]; other site 610130008180 Protein of unknown function (DUF554); Region: DUF554; pfam04474 610130008181 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 610130008182 MgtC family; Region: MgtC; pfam02308 610130008183 RNHCP domain; Region: RNHCP; pfam12647 610130008184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 610130008185 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 610130008186 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 610130008187 Predicted membrane protein [Function unknown]; Region: COG4129 610130008188 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 610130008189 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 610130008190 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 610130008191 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 610130008192 active site 610130008193 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 610130008194 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 610130008195 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130008196 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 610130008197 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 610130008198 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 610130008199 active site 610130008200 metal binding site [ion binding]; metal-binding site 610130008201 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 610130008202 dimerization interface [polypeptide binding]; other site 610130008203 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 610130008204 ATP binding site [chemical binding]; other site 610130008205 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 610130008206 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 610130008207 HupF/HypC family; Region: HupF_HypC; pfam01455 610130008208 Acylphosphatase; Region: Acylphosphatase; pfam00708 610130008209 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 610130008210 HypF finger; Region: zf-HYPF; pfam07503 610130008211 HypF finger; Region: zf-HYPF; pfam07503 610130008212 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 610130008213 Uncharacterized conserved protein [Function unknown]; Region: COG5646 610130008214 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 610130008215 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130008216 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 610130008217 active site 610130008218 phosphorylation site [posttranslational modification] 610130008219 intermolecular recognition site; other site 610130008220 dimerization interface [polypeptide binding]; other site 610130008221 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 610130008222 DNA binding site [nucleotide binding] 610130008223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130008224 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 610130008225 dimerization interface [polypeptide binding]; other site 610130008226 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 610130008227 dimer interface [polypeptide binding]; other site 610130008228 phosphorylation site [posttranslational modification] 610130008229 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 610130008230 ATP binding site [chemical binding]; other site 610130008231 Mg2+ binding site [ion binding]; other site 610130008232 G-X-G motif; other site 610130008233 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 610130008234 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 610130008235 acyl-activating enzyme (AAE) consensus motif; other site 610130008236 AMP binding site [chemical binding]; other site 610130008237 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 610130008238 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 610130008239 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 610130008240 catalytic residue [active] 610130008241 Phosphopantetheine attachment site; Region: PP-binding; cl09936 610130008242 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 610130008243 aminotransferase AlaT; Validated; Region: PRK09265 610130008244 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 610130008245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130008246 homodimer interface [polypeptide binding]; other site 610130008247 catalytic residue [active] 610130008248 Helix-turn-helix domain; Region: HTH_38; pfam13936 610130008249 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 610130008250 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130008251 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130008252 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 610130008253 Trp repressor protein; Region: Trp_repressor; cl17266 610130008254 TIGR03987 family protein; Region: TIGR03987 610130008255 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 610130008256 active site clefts [active] 610130008257 zinc binding site [ion binding]; other site 610130008258 dimer interface [polypeptide binding]; other site 610130008259 methionine sulfoxide reductase A; Provisional; Region: PRK14054 610130008260 methionine sulfoxide reductase B; Provisional; Region: PRK00222 610130008261 SelR domain; Region: SelR; pfam01641 610130008262 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 610130008263 putative active site [active] 610130008264 putative CoA binding site [chemical binding]; other site 610130008265 nudix motif; other site 610130008266 metal binding site [ion binding]; metal-binding site 610130008267 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 610130008268 active site 610130008269 DNA binding site [nucleotide binding] 610130008270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 610130008271 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 610130008272 dimer interface [polypeptide binding]; other site 610130008273 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 610130008274 trimer interface [polypeptide binding]; other site 610130008275 active site 610130008276 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130008277 Coenzyme A binding pocket [chemical binding]; other site 610130008278 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 610130008279 aspartate racemase; Region: asp_race; TIGR00035 610130008280 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 610130008281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130008282 Rrf2 family protein; Region: rrf2_super; TIGR00738 610130008283 Transcriptional regulator; Region: Rrf2; pfam02082 610130008284 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 610130008285 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 610130008286 catalytic loop [active] 610130008287 iron binding site [ion binding]; other site 610130008288 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 610130008289 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 610130008290 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 610130008291 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 610130008292 Protein of unknown function, DUF606; Region: DUF606; pfam04657 610130008293 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 610130008294 Protein of unknown function, DUF606; Region: DUF606; pfam04657 610130008295 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 610130008296 ligand binding site [chemical binding]; other site 610130008297 flexible hinge region; other site 610130008298 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 610130008299 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 610130008300 Predicted transcriptional regulators [Transcription]; Region: COG1695 610130008301 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 610130008302 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130008303 H+ Antiporter protein; Region: 2A0121; TIGR00900 610130008304 putative substrate translocation pore; other site 610130008305 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 610130008306 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130008307 DNA binding residues [nucleotide binding] 610130008308 dimer interface [polypeptide binding]; other site 610130008309 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 610130008310 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 610130008311 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 610130008312 active site 610130008313 catalytic tetrad [active] 610130008314 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 610130008315 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 610130008316 dimer interface [polypeptide binding]; other site 610130008317 active site 610130008318 metal binding site [ion binding]; metal-binding site 610130008319 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 610130008320 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 610130008321 DNA binding residues [nucleotide binding] 610130008322 putative dimer interface [polypeptide binding]; other site 610130008323 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 610130008324 S-layer homology domain; Region: SLH; pfam00395 610130008325 S-layer homology domain; Region: SLH; pfam00395 610130008326 S-layer homology domain; Region: SLH; pfam00395 610130008327 Histidine kinase; Region: His_kinase; pfam06580 610130008328 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 610130008329 ATP binding site [chemical binding]; other site 610130008330 Mg2+ binding site [ion binding]; other site 610130008331 G-X-G motif; other site 610130008332 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 610130008333 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 610130008334 active site 610130008335 phosphorylation site [posttranslational modification] 610130008336 intermolecular recognition site; other site 610130008337 dimerization interface [polypeptide binding]; other site 610130008338 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 610130008339 DNA binding residues [nucleotide binding] 610130008340 dimerization interface [polypeptide binding]; other site 610130008341 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 610130008342 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 610130008343 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 610130008344 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 610130008345 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 610130008346 xanthine permease; Region: pbuX; TIGR03173 610130008347 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 610130008348 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 610130008349 active site 610130008350 putative substrate binding pocket [chemical binding]; other site 610130008351 Membrane protein of unknown function; Region: DUF360; pfam04020 610130008352 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 610130008353 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 610130008354 putative FMN binding site [chemical binding]; other site 610130008355 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 610130008356 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130008357 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130008358 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 610130008359 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 610130008360 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 610130008361 ATP binding site [chemical binding]; other site 610130008362 Mg++ binding site [ion binding]; other site 610130008363 motif III; other site 610130008364 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 610130008365 nucleotide binding region [chemical binding]; other site 610130008366 ATP-binding site [chemical binding]; other site 610130008367 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 610130008368 RNA binding site [nucleotide binding]; other site 610130008369 MraW methylase family; Region: Methyltransf_5; cl17771 610130008370 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 610130008371 Predicted transcriptional regulator [Transcription]; Region: COG1959 610130008372 Transcriptional regulator; Region: Rrf2; cl17282 610130008373 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 610130008374 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130008375 myosin-cross-reactive antigen; Provisional; Region: PRK13977 610130008376 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 610130008377 classical (c) SDRs; Region: SDR_c; cd05233 610130008378 NAD(P) binding site [chemical binding]; other site 610130008379 active site 610130008380 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 610130008381 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 610130008382 active site 610130008383 FMN binding site [chemical binding]; other site 610130008384 substrate binding site [chemical binding]; other site 610130008385 putative catalytic residue [active] 610130008386 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 610130008387 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130008388 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130008389 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 610130008390 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 610130008391 hypothetical protein; Validated; Region: PRK00124 610130008392 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 610130008393 Low molecular weight phosphatase family; Region: LMWPc; cl00105 610130008394 active site 610130008395 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 610130008396 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 610130008397 P loop; other site 610130008398 Nucleotide binding site [chemical binding]; other site 610130008399 DTAP/Switch II; other site 610130008400 Switch I; other site 610130008401 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 610130008402 P loop; other site 610130008403 Nucleotide binding site [chemical binding]; other site 610130008404 DTAP/Switch II; other site 610130008405 Switch I; other site 610130008406 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 610130008407 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 610130008408 Sodium Bile acid symporter family; Region: SBF; cl17470 610130008409 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 610130008410 dimerization interface [polypeptide binding]; other site 610130008411 putative DNA binding site [nucleotide binding]; other site 610130008412 putative Zn2+ binding site [ion binding]; other site 610130008413 Amidohydrolase; Region: Amidohydro_2; pfam04909 610130008414 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 610130008415 DNA binding site [nucleotide binding] 610130008416 active site 610130008417 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 610130008418 YoaP-like; Region: YoaP; pfam14268 610130008419 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 610130008420 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 610130008421 TAP-like protein; Region: Abhydrolase_4; pfam08386 610130008422 Cupin domain; Region: Cupin_2; pfam07883 610130008423 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 610130008424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130008425 Coenzyme A binding pocket [chemical binding]; other site 610130008426 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 610130008427 Uncharacterized conserved protein [Function unknown]; Region: COG3379 610130008428 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 610130008429 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 610130008430 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 610130008431 putative uracil binding site [chemical binding]; other site 610130008432 putative active site [active] 610130008433 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 610130008434 active site 610130008435 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 610130008436 Chloramphenicol acetyltransferase; Region: CAT; pfam00302 610130008437 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 610130008438 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 610130008439 putative active site [active] 610130008440 putative metal binding site [ion binding]; other site 610130008441 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130008442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130008443 Response regulator receiver domain; Region: Response_reg; pfam00072 610130008444 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 610130008445 active site 610130008446 phosphorylation site [posttranslational modification] 610130008447 intermolecular recognition site; other site 610130008448 dimerization interface [polypeptide binding]; other site 610130008449 LytTr DNA-binding domain; Region: LytTR; smart00850 610130008450 Predicted transcriptional regulators [Transcription]; Region: COG1733 610130008451 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 610130008452 SnoaL-like domain; Region: SnoaL_2; pfam12680 610130008453 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 610130008454 iron binding site [ion binding]; other site 610130008455 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 610130008456 4Fe-4S binding domain; Region: Fer4; pfam00037 610130008457 Rubredoxin [Energy production and conversion]; Region: COG1773 610130008458 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 610130008459 iron binding site [ion binding]; other site 610130008460 Rubrerythrin [Energy production and conversion]; Region: COG1592 610130008461 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 610130008462 binuclear metal center [ion binding]; other site 610130008463 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 610130008464 iron binding site [ion binding]; other site 610130008465 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 610130008466 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 610130008467 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 610130008468 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 610130008469 active site 610130008470 dimer interface [polypeptide binding]; other site 610130008471 motif 1; other site 610130008472 motif 2; other site 610130008473 motif 3; other site 610130008474 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 610130008475 anticodon binding site; other site 610130008476 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 610130008477 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130008478 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130008479 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 610130008480 trimerization site [polypeptide binding]; other site 610130008481 active site 610130008482 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 610130008483 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 610130008484 Flavin Reductases; Region: FlaRed; cl00801 610130008485 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 610130008486 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 610130008487 trimerization site [polypeptide binding]; other site 610130008488 active site 610130008489 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 610130008490 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130008491 DNA binding residues [nucleotide binding] 610130008492 Protein of unknown function DUF89; Region: DUF89; cl15397 610130008493 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 610130008494 active site 610130008495 catalytic residues [active] 610130008496 metal binding site [ion binding]; metal-binding site 610130008497 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 610130008498 metal binding site 2 [ion binding]; metal-binding site 610130008499 putative DNA binding helix; other site 610130008500 metal binding site 1 [ion binding]; metal-binding site 610130008501 dimer interface [polypeptide binding]; other site 610130008502 structural Zn2+ binding site [ion binding]; other site 610130008503 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 610130008504 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130008505 switch II; other site 610130008506 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 610130008507 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 610130008508 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 610130008509 P loop nucleotide binding; other site 610130008510 switch II; other site 610130008511 Uncharacterized conserved protein [Function unknown]; Region: COG1433 610130008512 S-adenosylmethionine synthetase; Validated; Region: PRK05250 610130008513 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 610130008514 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 610130008515 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 610130008516 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 610130008517 Helix-turn-helix domain; Region: HTH_36; pfam13730 610130008518 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 610130008519 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 610130008520 active site 610130008521 phosphorylation site [posttranslational modification] 610130008522 intermolecular recognition site; other site 610130008523 dimerization interface [polypeptide binding]; other site 610130008524 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 610130008525 DNA binding site [nucleotide binding] 610130008526 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130008527 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 610130008528 dimer interface [polypeptide binding]; other site 610130008529 phosphorylation site [posttranslational modification] 610130008530 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 610130008531 ATP binding site [chemical binding]; other site 610130008532 Mg2+ binding site [ion binding]; other site 610130008533 G-X-G motif; other site 610130008534 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 610130008535 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 610130008536 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 610130008537 Walker A/P-loop; other site 610130008538 ATP binding site [chemical binding]; other site 610130008539 Q-loop/lid; other site 610130008540 ABC transporter signature motif; other site 610130008541 Walker B; other site 610130008542 D-loop; other site 610130008543 H-loop/switch region; other site 610130008544 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 610130008545 FtsX-like permease family; Region: FtsX; pfam02687 610130008546 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 610130008547 FtsX-like permease family; Region: FtsX; pfam02687 610130008548 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 610130008549 Ferredoxin [Energy production and conversion]; Region: COG1146 610130008550 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 610130008551 Predicted permeases [General function prediction only]; Region: COG0701 610130008552 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 610130008553 dimerization interface [polypeptide binding]; other site 610130008554 putative DNA binding site [nucleotide binding]; other site 610130008555 putative Zn2+ binding site [ion binding]; other site 610130008556 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130008557 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 610130008558 catalytic residues [active] 610130008559 catalytic nucleophile [active] 610130008560 Recombinase; Region: Recombinase; pfam07508 610130008561 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130008562 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130008563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130008564 metal binding site [ion binding]; metal-binding site 610130008565 active site 610130008566 I-site; other site 610130008567 Hemerythrin; Region: Hemerythrin; cd12107 610130008568 Fe binding site [ion binding]; other site 610130008569 PAS domain S-box; Region: sensory_box; TIGR00229 610130008570 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 610130008571 putative active site [active] 610130008572 heme pocket [chemical binding]; other site 610130008573 PAS domain S-box; Region: sensory_box; TIGR00229 610130008574 PAS domain; Region: PAS; smart00091 610130008575 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 610130008576 PAS fold; Region: PAS_3; pfam08447 610130008577 putative active site [active] 610130008578 heme pocket [chemical binding]; other site 610130008579 PAS fold; Region: PAS; pfam00989 610130008580 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 610130008581 putative active site [active] 610130008582 heme pocket [chemical binding]; other site 610130008583 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130008584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130008585 metal binding site [ion binding]; metal-binding site 610130008586 active site 610130008587 I-site; other site 610130008588 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 610130008589 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130008590 Zn2+ binding site [ion binding]; other site 610130008591 Mg2+ binding site [ion binding]; other site 610130008592 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130008593 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 610130008594 catalytic residues [active] 610130008595 catalytic nucleophile [active] 610130008596 Recombinase; Region: Recombinase; pfam07508 610130008597 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130008598 Recombinase; Region: Recombinase; pfam07508 610130008599 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130008600 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130008601 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 610130008602 catalytic residues [active] 610130008603 catalytic nucleophile [active] 610130008604 Recombinase; Region: Recombinase; pfam07508 610130008605 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130008606 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130008607 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130008608 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 610130008609 non-specific DNA binding site [nucleotide binding]; other site 610130008610 salt bridge; other site 610130008611 sequence-specific DNA binding site [nucleotide binding]; other site 610130008612 Domain of unknown function (DUF955); Region: DUF955; pfam06114 610130008613 Caspase domain; Region: Peptidase_C14; pfam00656 610130008614 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 610130008615 TIR domain; Region: TIR_2; pfam13676 610130008616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130008617 Zn2+ binding site [ion binding]; other site 610130008618 Mg2+ binding site [ion binding]; other site 610130008619 Uncharacterized conserved protein [Function unknown]; Region: COG5316 610130008620 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 610130008621 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 610130008622 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 610130008623 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 610130008624 GIY-YIG motif/motif A; other site 610130008625 putative active site [active] 610130008626 putative metal binding site [ion binding]; other site 610130008627 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 610130008628 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 610130008629 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 610130008630 Predicted transcriptional regulator [Transcription]; Region: COG2378 610130008631 WYL domain; Region: WYL; pfam13280 610130008632 Protein of unknown function DUF91; Region: DUF91; cl00709 610130008633 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 610130008634 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 610130008635 AAA domain; Region: AAA_11; pfam13086 610130008636 Part of AAA domain; Region: AAA_19; pfam13245 610130008637 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 610130008638 AAA domain; Region: AAA_12; pfam13087 610130008639 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 610130008640 putative active site [active] 610130008641 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 610130008642 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 610130008643 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 610130008644 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 610130008645 TIGR02687 family protein; Region: TIGR02687 610130008646 PglZ domain; Region: PglZ; pfam08665 610130008647 SEFIR domain; Region: SEFIR; pfam08357 610130008648 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 610130008649 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 610130008650 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 610130008651 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 610130008652 non-specific DNA binding site [nucleotide binding]; other site 610130008653 salt bridge; other site 610130008654 sequence-specific DNA binding site [nucleotide binding]; other site 610130008655 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 610130008656 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 610130008657 Int/Topo IB signature motif; other site 610130008658 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 610130008659 active site 610130008660 DNA binding site [nucleotide binding] 610130008661 Int/Topo IB signature motif; other site 610130008662 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 610130008663 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 610130008664 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 610130008665 active site 610130008666 DNA binding site [nucleotide binding] 610130008667 Int/Topo IB signature motif; other site 610130008668 Helix-turn-helix domain; Region: HTH_36; pfam13730 610130008669 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 610130008670 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 610130008671 CHC2 zinc finger; Region: zf-CHC2; cl17510 610130008672 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 610130008673 Toprim-like; Region: Toprim_2; pfam13155 610130008674 active site 610130008675 metal binding site [ion binding]; metal-binding site 610130008676 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 610130008677 Sel1-like repeats; Region: SEL1; smart00671 610130008678 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 610130008679 Sel1-like repeats; Region: SEL1; smart00671 610130008680 Sel1-like repeats; Region: SEL1; smart00671 610130008681 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 610130008682 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130008683 NlpC/P60 family; Region: NLPC_P60; cl17555 610130008684 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 610130008685 putative active site pocket [active] 610130008686 dimerization interface [polypeptide binding]; other site 610130008687 putative catalytic residue [active] 610130008688 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 610130008689 AAA-like domain; Region: AAA_10; pfam12846 610130008690 Domain of unknown function DUF87; Region: DUF87; pfam01935 610130008691 Protein of unknown function, DUF606; Region: DUF606; pfam04657 610130008692 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 610130008693 Domain of unknown function DUF20; Region: UPF0118; pfam01594 610130008694 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 610130008695 Domain of unknown function DUF21; Region: DUF21; pfam01595 610130008696 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 610130008697 Transporter associated domain; Region: CorC_HlyC; pfam03471 610130008698 Phosphotransferase enzyme family; Region: APH; pfam01636 610130008699 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 610130008700 active site 610130008701 ATP binding site [chemical binding]; other site 610130008702 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 610130008703 ABC-2 type transporter; Region: ABC2_membrane; cl17235 610130008704 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130008705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130008706 Walker A/P-loop; other site 610130008707 ATP binding site [chemical binding]; other site 610130008708 Q-loop/lid; other site 610130008709 ABC transporter signature motif; other site 610130008710 Walker B; other site 610130008711 D-loop; other site 610130008712 H-loop/switch region; other site 610130008713 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 610130008714 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130008715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130008716 Walker A/P-loop; other site 610130008717 ATP binding site [chemical binding]; other site 610130008718 Q-loop/lid; other site 610130008719 ABC transporter signature motif; other site 610130008720 Walker B; other site 610130008721 D-loop; other site 610130008722 H-loop/switch region; other site 610130008723 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 610130008724 EamA-like transporter family; Region: EamA; pfam00892 610130008725 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 610130008726 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 610130008727 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 610130008728 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130008729 Walker A motif; other site 610130008730 ATP binding site [chemical binding]; other site 610130008731 Walker B motif; other site 610130008732 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 610130008733 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 610130008734 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 610130008735 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 610130008736 SpoVG; Region: SpoVG; pfam04026 610130008737 YodL-like; Region: YodL; pfam14191 610130008738 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 610130008739 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 610130008740 Transposase; Region: DEDD_Tnp_IS110; pfam01548 610130008741 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 610130008742 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 610130008743 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 610130008744 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 610130008745 S-adenosylmethionine binding site [chemical binding]; other site 610130008746 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 610130008747 putative deacylase active site [active] 610130008748 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 610130008749 non-specific DNA binding site [nucleotide binding]; other site 610130008750 salt bridge; other site 610130008751 sequence-specific DNA binding site [nucleotide binding]; other site 610130008752 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 610130008753 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 610130008754 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 610130008755 active site 610130008756 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 610130008757 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130008758 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130008759 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130008760 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 610130008761 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 610130008762 active site 610130008763 motif I; other site 610130008764 motif II; other site 610130008765 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 610130008766 Chloramphenicol acetyltransferase; Region: CAT; cl02008 610130008767 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 610130008768 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 610130008769 putative ligand binding residues [chemical binding]; other site 610130008770 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 610130008771 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 610130008772 Walker A/P-loop; other site 610130008773 ATP binding site [chemical binding]; other site 610130008774 Q-loop/lid; other site 610130008775 ABC transporter signature motif; other site 610130008776 Walker B; other site 610130008777 D-loop; other site 610130008778 H-loop/switch region; other site 610130008779 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 610130008780 ABC-ATPase subunit interface; other site 610130008781 dimer interface [polypeptide binding]; other site 610130008782 putative PBP binding regions; other site 610130008783 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 610130008784 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 610130008785 ABC-ATPase subunit interface; other site 610130008786 dimer interface [polypeptide binding]; other site 610130008787 putative PBP binding regions; other site 610130008788 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130008789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130008790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130008791 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 610130008792 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 610130008793 nucleotide binding site [chemical binding]; other site 610130008794 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 610130008795 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 610130008796 Transcriptional regulators [Transcription]; Region: GntR; COG1802 610130008797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130008798 DNA-binding site [nucleotide binding]; DNA binding site 610130008799 FCD domain; Region: FCD; pfam07729 610130008800 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 610130008801 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 610130008802 NADP binding site [chemical binding]; other site 610130008803 homodimer interface [polypeptide binding]; other site 610130008804 active site 610130008805 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 610130008806 ATP cone domain; Region: ATP-cone; pfam03477 610130008807 Class III ribonucleotide reductase; Region: RNR_III; cd01675 610130008808 effector binding site; other site 610130008809 active site 610130008810 Zn binding site [ion binding]; other site 610130008811 glycine loop; other site 610130008812 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 610130008813 Cell division protein FtsA; Region: FtsA; smart00842 610130008814 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 610130008815 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 610130008816 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 610130008817 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130008818 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 610130008819 catalytic residues [active] 610130008820 catalytic nucleophile [active] 610130008821 Recombinase; Region: Recombinase; pfam07508 610130008822 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130008823 CotJB protein; Region: CotJB; pfam12652 610130008824 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 610130008825 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 610130008826 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 610130008827 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 610130008828 iron-sulfur cluster [ion binding]; other site 610130008829 [2Fe-2S] cluster binding site [ion binding]; other site 610130008830 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130008831 metal binding site [ion binding]; metal-binding site 610130008832 active site 610130008833 I-site; other site 610130008834 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 610130008835 FOG: CBS domain [General function prediction only]; Region: COG0517 610130008836 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_30; cd04643 610130008837 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 610130008838 Peptidase family M23; Region: Peptidase_M23; pfam01551 610130008839 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 610130008840 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 610130008841 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130008842 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 610130008843 active site 610130008844 metal binding site [ion binding]; metal-binding site 610130008845 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 610130008846 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 610130008847 Stage II sporulation protein; Region: SpoIID; pfam08486 610130008848 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 610130008849 homodimer interface [polypeptide binding]; other site 610130008850 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 610130008851 active site pocket [active] 610130008852 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 610130008853 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 610130008854 active site 610130008855 HIGH motif; other site 610130008856 nucleotide binding site [chemical binding]; other site 610130008857 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 610130008858 active site 610130008859 KMSKS motif; other site 610130008860 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 610130008861 tRNA binding surface [nucleotide binding]; other site 610130008862 anticodon binding site; other site 610130008863 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 610130008864 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 610130008865 active site 610130008866 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 610130008867 Acyltransferase family; Region: Acyl_transf_3; pfam01757 610130008868 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 610130008869 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 610130008870 5S rRNA interface [nucleotide binding]; other site 610130008871 CTC domain interface [polypeptide binding]; other site 610130008872 L16 interface [polypeptide binding]; other site 610130008873 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 610130008874 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 610130008875 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 610130008876 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 610130008877 ligand binding site [chemical binding]; other site 610130008878 flexible hinge region; other site 610130008879 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 610130008880 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 610130008881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 610130008882 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 610130008883 Pollen proteins Ole e I like; Region: Pollen_Ole_e_I; pfam01190 610130008884 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 610130008885 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 610130008886 NAD binding site [chemical binding]; other site 610130008887 substrate binding site [chemical binding]; other site 610130008888 active site 610130008889 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 610130008890 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 610130008891 inhibitor-cofactor binding pocket; inhibition site 610130008892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130008893 catalytic residue [active] 610130008894 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 610130008895 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 610130008896 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 610130008897 Substrate binding site; other site 610130008898 metal-binding site 610130008899 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 610130008900 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 610130008901 putative trimer interface [polypeptide binding]; other site 610130008902 putative CoA binding site [chemical binding]; other site 610130008903 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 610130008904 NeuB family; Region: NeuB; pfam03102 610130008905 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 610130008906 NeuB binding interface [polypeptide binding]; other site 610130008907 putative substrate binding site [chemical binding]; other site 610130008908 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 610130008909 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 610130008910 active site 610130008911 homodimer interface [polypeptide binding]; other site 610130008912 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 610130008913 ligand binding site; other site 610130008914 tetramer interface; other site 610130008915 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 610130008916 peptidase T-like protein; Region: PepT-like; TIGR01883 610130008917 metal binding site [ion binding]; metal-binding site 610130008918 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 610130008919 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 610130008920 dimer interface [polypeptide binding]; other site 610130008921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130008922 catalytic residue [active] 610130008923 Rubrerythrin [Energy production and conversion]; Region: COG1592 610130008924 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 610130008925 binuclear metal center [ion binding]; other site 610130008926 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 610130008927 iron binding site [ion binding]; other site 610130008928 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 610130008929 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 610130008930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130008931 homodimer interface [polypeptide binding]; other site 610130008932 catalytic residue [active] 610130008933 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 610130008934 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 610130008935 homodimer interface [polypeptide binding]; other site 610130008936 substrate-cofactor binding pocket; other site 610130008937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130008938 catalytic residue [active] 610130008939 Transcriptional regulator; Region: Rrf2; cl17282 610130008940 Rrf2 family protein; Region: rrf2_super; TIGR00738 610130008941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130008942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130008943 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 610130008944 dimerization interface [polypeptide binding]; other site 610130008945 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 610130008946 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 610130008947 homodimer interface [polypeptide binding]; other site 610130008948 substrate-cofactor binding pocket; other site 610130008949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130008950 catalytic residue [active] 610130008951 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 610130008952 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 610130008953 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 610130008954 GGGtGRT protein; Region: GGGtGRT; pfam14057 610130008955 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 610130008956 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 610130008957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 610130008958 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130008959 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130008960 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130008961 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 610130008962 putative oxidoreductase; Provisional; Region: PRK12831 610130008963 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 610130008964 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130008965 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 610130008966 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 610130008967 FAD binding pocket [chemical binding]; other site 610130008968 FAD binding motif [chemical binding]; other site 610130008969 phosphate binding motif [ion binding]; other site 610130008970 beta-alpha-beta structure motif; other site 610130008971 NAD binding pocket [chemical binding]; other site 610130008972 Iron coordination center [ion binding]; other site 610130008973 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 610130008974 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 610130008975 folate binding site [chemical binding]; other site 610130008976 NADP+ binding site [chemical binding]; other site 610130008977 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 610130008978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130008979 Walker A/P-loop; other site 610130008980 ATP binding site [chemical binding]; other site 610130008981 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 610130008982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130008983 ABC transporter signature motif; other site 610130008984 Walker B; other site 610130008985 D-loop; other site 610130008986 H-loop/switch region; other site 610130008987 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 610130008988 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 610130008989 active site 610130008990 metal binding site [ion binding]; metal-binding site 610130008991 DNA binding site [nucleotide binding] 610130008992 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 610130008993 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 610130008994 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 610130008995 ATP binding site [chemical binding]; other site 610130008996 putative Mg++ binding site [ion binding]; other site 610130008997 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 610130008998 nucleotide binding region [chemical binding]; other site 610130008999 ATP-binding site [chemical binding]; other site 610130009000 RQC domain; Region: RQC; pfam09382 610130009001 HRDC domain; Region: HRDC; pfam00570 610130009002 EamA-like transporter family; Region: EamA; pfam00892 610130009003 EamA-like transporter family; Region: EamA; pfam00892 610130009004 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 610130009005 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 610130009006 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 610130009007 dimer interface [polypeptide binding]; other site 610130009008 phosphorylation site [posttranslational modification] 610130009009 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 610130009010 ATP binding site [chemical binding]; other site 610130009011 Mg2+ binding site [ion binding]; other site 610130009012 G-X-G motif; other site 610130009013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130009014 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 610130009015 active site 610130009016 phosphorylation site [posttranslational modification] 610130009017 intermolecular recognition site; other site 610130009018 dimerization interface [polypeptide binding]; other site 610130009019 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 610130009020 DNA binding site [nucleotide binding] 610130009021 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 610130009022 TPR motif; other site 610130009023 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 610130009024 TrkA-N domain; Region: TrkA_N; pfam02254 610130009025 TrkA-N domain; Region: TrkA_N; pfam02254 610130009026 TrkA-C domain; Region: TrkA_C; pfam02080 610130009027 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 610130009028 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 610130009029 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 610130009030 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 610130009031 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 610130009032 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130009033 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 610130009034 non-specific DNA binding site [nucleotide binding]; other site 610130009035 salt bridge; other site 610130009036 sequence-specific DNA binding site [nucleotide binding]; other site 610130009037 GMP synthase; Reviewed; Region: guaA; PRK00074 610130009038 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 610130009039 AMP/PPi binding site [chemical binding]; other site 610130009040 candidate oxyanion hole; other site 610130009041 catalytic triad [active] 610130009042 potential glutamine specificity residues [chemical binding]; other site 610130009043 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 610130009044 ATP Binding subdomain [chemical binding]; other site 610130009045 Ligand Binding sites [chemical binding]; other site 610130009046 Dimerization subdomain; other site 610130009047 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 610130009048 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 610130009049 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 610130009050 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 610130009051 YARHG domain; Region: YARHG; pfam13308 610130009052 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 610130009053 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130009054 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 610130009055 dimer interface [polypeptide binding]; other site 610130009056 active site 610130009057 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 610130009058 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 610130009059 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 610130009060 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 610130009061 homotrimer interaction site [polypeptide binding]; other site 610130009062 putative active site [active] 610130009063 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 610130009064 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 610130009065 active site 610130009066 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 610130009067 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 610130009068 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 610130009069 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 610130009070 catalytic residue [active] 610130009071 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 610130009072 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 610130009073 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130009074 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 610130009075 dimer interface [polypeptide binding]; other site 610130009076 conserved gate region; other site 610130009077 putative PBP binding loops; other site 610130009078 ABC-ATPase subunit interface; other site 610130009079 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 610130009080 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 610130009081 dimer interface [polypeptide binding]; other site 610130009082 conserved gate region; other site 610130009083 putative PBP binding loops; other site 610130009084 ABC-ATPase subunit interface; other site 610130009085 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130009086 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130009087 YheO-like PAS domain; Region: PAS_6; pfam08348 610130009088 HTH domain; Region: HTH_22; pfam13309 610130009089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 610130009090 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 610130009091 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 610130009092 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 610130009093 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 610130009094 FtsH Extracellular; Region: FtsH_ext; pfam06480 610130009095 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 610130009096 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 610130009097 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 610130009098 Walker A motif; other site 610130009099 ATP binding site [chemical binding]; other site 610130009100 Walker B motif; other site 610130009101 arginine finger; other site 610130009102 Peptidase family M41; Region: Peptidase_M41; pfam01434 610130009103 CTP synthetase; Validated; Region: pyrG; PRK05380 610130009104 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 610130009105 Catalytic site [active] 610130009106 active site 610130009107 UTP binding site [chemical binding]; other site 610130009108 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 610130009109 active site 610130009110 putative oxyanion hole; other site 610130009111 catalytic triad [active] 610130009112 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 610130009113 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 610130009114 putative ligand binding site [chemical binding]; other site 610130009115 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130009116 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 610130009117 TM-ABC transporter signature motif; other site 610130009118 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 610130009119 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 610130009120 TM-ABC transporter signature motif; other site 610130009121 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 610130009122 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 610130009123 Walker A/P-loop; other site 610130009124 ATP binding site [chemical binding]; other site 610130009125 Q-loop/lid; other site 610130009126 ABC transporter signature motif; other site 610130009127 Walker B; other site 610130009128 D-loop; other site 610130009129 H-loop/switch region; other site 610130009130 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 610130009131 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 610130009132 Walker A/P-loop; other site 610130009133 ATP binding site [chemical binding]; other site 610130009134 Q-loop/lid; other site 610130009135 ABC transporter signature motif; other site 610130009136 Walker B; other site 610130009137 D-loop; other site 610130009138 H-loop/switch region; other site 610130009139 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130009140 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130009141 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130009142 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130009143 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 610130009144 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 610130009145 active site 610130009146 Riboflavin kinase; Region: Flavokinase; pfam01687 610130009147 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 610130009148 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 610130009149 RNA binding site [nucleotide binding]; other site 610130009150 active site 610130009151 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 610130009152 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 610130009153 DHH family; Region: DHH; pfam01368 610130009154 DHHA1 domain; Region: DHHA1; pfam02272 610130009155 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 610130009156 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 610130009157 Invertebrate innate immunity transcript family; Region: Innate_immun; pfam12782 610130009158 translation initiation factor IF-2; Region: IF-2; TIGR00487 610130009159 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 610130009160 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 610130009161 G1 box; other site 610130009162 putative GEF interaction site [polypeptide binding]; other site 610130009163 GTP/Mg2+ binding site [chemical binding]; other site 610130009164 Switch I region; other site 610130009165 G2 box; other site 610130009166 G3 box; other site 610130009167 Switch II region; other site 610130009168 G4 box; other site 610130009169 G5 box; other site 610130009170 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 610130009171 Translation-initiation factor 2; Region: IF-2; pfam11987 610130009172 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 610130009173 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 610130009174 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 610130009175 putative RNA binding cleft [nucleotide binding]; other site 610130009176 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 610130009177 NusA N-terminal domain; Region: NusA_N; pfam08529 610130009178 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 610130009179 RNA binding site [nucleotide binding]; other site 610130009180 homodimer interface [polypeptide binding]; other site 610130009181 NusA-like KH domain; Region: KH_5; pfam13184 610130009182 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 610130009183 G-X-X-G motif; other site 610130009184 ribosome maturation protein RimP; Reviewed; Region: PRK00092 610130009185 Sm and related proteins; Region: Sm_like; cl00259 610130009186 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 610130009187 putative oligomer interface [polypeptide binding]; other site 610130009188 putative RNA binding site [nucleotide binding]; other site 610130009189 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 610130009190 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 610130009191 Walker A/P-loop; other site 610130009192 ATP binding site [chemical binding]; other site 610130009193 Q-loop/lid; other site 610130009194 ABC transporter signature motif; other site 610130009195 Walker B; other site 610130009196 D-loop; other site 610130009197 H-loop/switch region; other site 610130009198 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 610130009199 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 610130009200 dimer interface [polypeptide binding]; other site 610130009201 conserved gate region; other site 610130009202 putative PBP binding loops; other site 610130009203 ABC-ATPase subunit interface; other site 610130009204 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130009205 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130009206 DNA binding site [nucleotide binding] 610130009207 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130009208 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 610130009209 active site 610130009210 substrate binding site [chemical binding]; other site 610130009211 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 610130009212 metal binding site [ion binding]; metal-binding site 610130009213 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 610130009214 active site 610130009215 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130009216 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 610130009217 dimer interface [polypeptide binding]; other site 610130009218 conserved gate region; other site 610130009219 putative PBP binding loops; other site 610130009220 ABC-ATPase subunit interface; other site 610130009221 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 610130009222 dimer interface [polypeptide binding]; other site 610130009223 conserved gate region; other site 610130009224 ABC-ATPase subunit interface; other site 610130009225 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130009226 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 610130009227 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 610130009228 active site 610130009229 motif I; other site 610130009230 motif II; other site 610130009231 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 610130009232 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 610130009233 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 610130009234 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 610130009235 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130009236 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 610130009237 dimer interface [polypeptide binding]; other site 610130009238 conserved gate region; other site 610130009239 putative PBP binding loops; other site 610130009240 ABC-ATPase subunit interface; other site 610130009241 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 610130009242 conserved gate region; other site 610130009243 dimer interface [polypeptide binding]; other site 610130009244 putative PBP binding loops; other site 610130009245 ABC-ATPase subunit interface; other site 610130009246 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 610130009247 dimerization interface [polypeptide binding]; other site 610130009248 Predicted transcriptional regulator [Transcription]; Region: COG4189 610130009249 putative DNA binding site [nucleotide binding]; other site 610130009250 putative Zn2+ binding site [ion binding]; other site 610130009251 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 610130009252 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 610130009253 CoA-transferase family III; Region: CoA_transf_3; pfam02515 610130009254 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 610130009255 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 610130009256 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 610130009257 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 610130009258 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 610130009259 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 610130009260 Ligand binding site [chemical binding]; other site 610130009261 Electron transfer flavoprotein domain; Region: ETF; pfam01012 610130009262 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 610130009263 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 610130009264 active site 610130009265 AMP-binding domain protein; Validated; Region: PRK08315 610130009266 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 610130009267 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 610130009268 acyl-activating enzyme (AAE) consensus motif; other site 610130009269 putative AMP binding site [chemical binding]; other site 610130009270 putative active site [active] 610130009271 putative CoA binding site [chemical binding]; other site 610130009272 Uncharacterized membrane protein [Function unknown]; Region: COG3949 610130009273 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 610130009274 Na binding site [ion binding]; other site 610130009275 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 610130009276 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 610130009277 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 610130009278 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 610130009279 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 610130009280 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 610130009281 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 610130009282 Transcriptional regulators [Transcription]; Region: FadR; COG2186 610130009283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130009284 DNA-binding site [nucleotide binding]; DNA binding site 610130009285 FCD domain; Region: FCD; pfam07729 610130009286 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 610130009287 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 610130009288 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 610130009289 glucose-6-phosphate isomerase; Provisional; Region: PRK04190 610130009290 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 610130009291 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 610130009292 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130009293 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130009294 DNA-binding site [nucleotide binding]; DNA binding site 610130009295 UTRA domain; Region: UTRA; pfam07702 610130009296 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 610130009297 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 610130009298 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 610130009299 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 610130009300 active site 610130009301 active pocket/dimerization site; other site 610130009302 phosphorylation site [posttranslational modification] 610130009303 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130009304 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 610130009305 T surface-antigen of pili; Region: FctA; cl16948 610130009306 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130009307 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130009308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 610130009309 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 610130009310 active site 610130009311 phosphorylation site [posttranslational modification] 610130009312 intermolecular recognition site; other site 610130009313 dimerization interface [polypeptide binding]; other site 610130009314 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 610130009315 DNA binding residues [nucleotide binding] 610130009316 dimerization interface [polypeptide binding]; other site 610130009317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 610130009318 Histidine kinase; Region: HisKA_3; pfam07730 610130009319 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 610130009320 Mg2+ binding site [ion binding]; other site 610130009321 G-X-G motif; other site 610130009322 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 610130009323 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 610130009324 ligand binding site [chemical binding]; other site 610130009325 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130009326 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 610130009327 TM-ABC transporter signature motif; other site 610130009328 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130009329 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130009330 Walker A/P-loop; other site 610130009331 ATP binding site [chemical binding]; other site 610130009332 Q-loop/lid; other site 610130009333 ABC transporter signature motif; other site 610130009334 Walker B; other site 610130009335 D-loop; other site 610130009336 H-loop/switch region; other site 610130009337 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130009338 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 610130009339 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130009340 ligand binding site [chemical binding]; other site 610130009341 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 610130009342 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 610130009343 intersubunit interface [polypeptide binding]; other site 610130009344 active site 610130009345 zinc binding site [ion binding]; other site 610130009346 Na+ binding site [ion binding]; other site 610130009347 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130009348 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 610130009349 substrate binding site [chemical binding]; other site 610130009350 ATP binding site [chemical binding]; other site 610130009351 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 610130009352 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 610130009353 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 610130009354 dimerization interface [polypeptide binding]; other site 610130009355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130009356 dimer interface [polypeptide binding]; other site 610130009357 putative CheW interface [polypeptide binding]; other site 610130009358 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 610130009359 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130009360 ABC transporter; Region: ABC_tran_2; pfam12848 610130009361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130009362 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 610130009363 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 610130009364 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 610130009365 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 610130009366 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 610130009367 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 610130009368 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 610130009369 motif II; other site 610130009370 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 610130009371 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 610130009372 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 610130009373 RNase E interface [polypeptide binding]; other site 610130009374 trimer interface [polypeptide binding]; other site 610130009375 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 610130009376 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 610130009377 RNase E interface [polypeptide binding]; other site 610130009378 trimer interface [polypeptide binding]; other site 610130009379 active site 610130009380 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 610130009381 putative nucleic acid binding region [nucleotide binding]; other site 610130009382 G-X-X-G motif; other site 610130009383 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 610130009384 RNA binding site [nucleotide binding]; other site 610130009385 domain interface; other site 610130009386 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 610130009387 16S/18S rRNA binding site [nucleotide binding]; other site 610130009388 S13e-L30e interaction site [polypeptide binding]; other site 610130009389 25S rRNA binding site [nucleotide binding]; other site 610130009390 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 610130009391 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 610130009392 active site 610130009393 putative substrate binding pocket [chemical binding]; other site 610130009394 adenine deaminase; Region: ade; TIGR01178 610130009395 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 610130009396 active site 610130009397 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 610130009398 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 610130009399 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 610130009400 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 610130009401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130009402 Walker A/P-loop; other site 610130009403 ATP binding site [chemical binding]; other site 610130009404 Q-loop/lid; other site 610130009405 ABC transporter signature motif; other site 610130009406 Walker B; other site 610130009407 D-loop; other site 610130009408 H-loop/switch region; other site 610130009409 TOBE domain; Region: TOBE_2; pfam08402 610130009410 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 610130009411 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 610130009412 dimer interface [polypeptide binding]; other site 610130009413 conserved gate region; other site 610130009414 putative PBP binding loops; other site 610130009415 ABC-ATPase subunit interface; other site 610130009416 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 610130009417 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 610130009418 dimer interface [polypeptide binding]; other site 610130009419 conserved gate region; other site 610130009420 putative PBP binding loops; other site 610130009421 ABC-ATPase subunit interface; other site 610130009422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130009423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130009424 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 610130009425 dimerization interface [polypeptide binding]; other site 610130009426 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 610130009427 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 610130009428 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 610130009429 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 610130009430 OPT oligopeptide transporter protein; Region: OPT; pfam03169 610130009431 putative oligopeptide transporter, OPT family; Region: TIGR00733 610130009432 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 610130009433 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 610130009434 metal binding site [ion binding]; metal-binding site 610130009435 dimer interface [polypeptide binding]; other site 610130009436 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 610130009437 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 610130009438 Ligand Binding Site [chemical binding]; other site 610130009439 Protein of unknown function DUF111; Region: DUF111; cl03398 610130009440 Protein of unknown function DUF111; Region: DUF111; pfam01969 610130009441 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 610130009442 AIR carboxylase; Region: AIRC; smart01001 610130009443 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 610130009444 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130009445 Walker A/P-loop; other site 610130009446 ATP binding site [chemical binding]; other site 610130009447 Q-loop/lid; other site 610130009448 ABC transporter signature motif; other site 610130009449 Walker B; other site 610130009450 D-loop; other site 610130009451 H-loop/switch region; other site 610130009452 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 610130009453 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130009454 Walker A/P-loop; other site 610130009455 ATP binding site [chemical binding]; other site 610130009456 Q-loop/lid; other site 610130009457 ABC transporter signature motif; other site 610130009458 Walker B; other site 610130009459 D-loop; other site 610130009460 H-loop/switch region; other site 610130009461 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 610130009462 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 610130009463 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 610130009464 dimer interface [polypeptide binding]; other site 610130009465 conserved gate region; other site 610130009466 ABC-ATPase subunit interface; other site 610130009467 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 610130009468 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 610130009469 dimer interface [polypeptide binding]; other site 610130009470 conserved gate region; other site 610130009471 putative PBP binding loops; other site 610130009472 ABC-ATPase subunit interface; other site 610130009473 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 610130009474 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_19; cd08518 610130009475 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 610130009476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130009477 Coenzyme A binding pocket [chemical binding]; other site 610130009478 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 610130009479 active site 610130009480 catalytic site [active] 610130009481 substrate binding site [chemical binding]; other site 610130009482 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 610130009483 Transglycosylase; Region: Transgly; pfam00912 610130009484 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 610130009485 Transposase; Region: HTH_Tnp_1; pfam01527 610130009486 putative transposase OrfB; Reviewed; Region: PHA02517 610130009487 HTH-like domain; Region: HTH_21; pfam13276 610130009488 Integrase core domain; Region: rve; pfam00665 610130009489 Integrase core domain; Region: rve_3; pfam13683 610130009490 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 610130009491 active site 610130009492 catalytic residues [active] 610130009493 LytTr DNA-binding domain; Region: LytTR; smart00850 610130009494 HAMP domain; Region: HAMP; pfam00672 610130009495 dimerization interface [polypeptide binding]; other site 610130009496 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130009497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130009498 dimer interface [polypeptide binding]; other site 610130009499 putative CheW interface [polypeptide binding]; other site 610130009500 D-mannonate oxidoreductase; Provisional; Region: PRK08277 610130009501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130009502 NAD(P) binding site [chemical binding]; other site 610130009503 active site 610130009504 mannonate dehydratase; Provisional; Region: PRK03906 610130009505 mannonate dehydratase; Region: uxuA; TIGR00695 610130009506 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130009507 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130009508 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 610130009509 AzlC protein; Region: AzlC; cl00570 610130009510 Radical SAM superfamily; Region: Radical_SAM; pfam04055 610130009511 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 610130009512 FeS/SAM binding site; other site 610130009513 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 610130009514 dimerization interface [polypeptide binding]; other site 610130009515 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130009516 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130009517 dimer interface [polypeptide binding]; other site 610130009518 putative CheW interface [polypeptide binding]; other site 610130009519 FtsH Extracellular; Region: FtsH_ext; pfam06480 610130009520 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 610130009521 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 610130009522 Walker A motif; other site 610130009523 ATP binding site [chemical binding]; other site 610130009524 Walker B motif; other site 610130009525 arginine finger; other site 610130009526 Peptidase family M41; Region: Peptidase_M41; pfam01434 610130009527 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 610130009528 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 610130009529 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 610130009530 inhibitor-cofactor binding pocket; inhibition site 610130009531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130009532 catalytic residue [active] 610130009533 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 610130009534 active site 610130009535 SAM binding site [chemical binding]; other site 610130009536 homodimer interface [polypeptide binding]; other site 610130009537 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 610130009538 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 610130009539 active site 610130009540 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 610130009541 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 610130009542 domain interfaces; other site 610130009543 active site 610130009544 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 610130009545 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 610130009546 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 610130009547 glutamyl-tRNA reductase; Region: hemA; TIGR01035 610130009548 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 610130009549 tRNA; other site 610130009550 putative tRNA binding site [nucleotide binding]; other site 610130009551 putative NADP binding site [chemical binding]; other site 610130009552 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 610130009553 glycerol kinase; Provisional; Region: glpK; PRK00047 610130009554 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 610130009555 N- and C-terminal domain interface [polypeptide binding]; other site 610130009556 active site 610130009557 MgATP binding site [chemical binding]; other site 610130009558 catalytic site [active] 610130009559 metal binding site [ion binding]; metal-binding site 610130009560 glycerol binding site [chemical binding]; other site 610130009561 homotetramer interface [polypeptide binding]; other site 610130009562 homodimer interface [polypeptide binding]; other site 610130009563 FBP binding site [chemical binding]; other site 610130009564 protein IIAGlc interface [polypeptide binding]; other site 610130009565 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 610130009566 amphipathic channel; other site 610130009567 Asn-Pro-Ala signature motifs; other site 610130009568 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 610130009569 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 610130009570 active site 610130009571 phosphorylation site [posttranslational modification] 610130009572 intermolecular recognition site; other site 610130009573 dimerization interface [polypeptide binding]; other site 610130009574 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 610130009575 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130009576 Coenzyme A binding pocket [chemical binding]; other site 610130009577 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 610130009578 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 610130009579 Walker A/P-loop; other site 610130009580 ATP binding site [chemical binding]; other site 610130009581 Q-loop/lid; other site 610130009582 ABC transporter signature motif; other site 610130009583 Walker B; other site 610130009584 D-loop; other site 610130009585 H-loop/switch region; other site 610130009586 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 610130009587 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 610130009588 dimer interface [polypeptide binding]; other site 610130009589 conserved gate region; other site 610130009590 putative PBP binding loops; other site 610130009591 ABC-ATPase subunit interface; other site 610130009592 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 610130009593 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 610130009594 substrate binding pocket [chemical binding]; other site 610130009595 membrane-bound complex binding site; other site 610130009596 hinge residues; other site 610130009597 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 610130009598 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 610130009599 amidase catalytic site [active] 610130009600 Zn binding residues [ion binding]; other site 610130009601 substrate binding site [chemical binding]; other site 610130009602 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 610130009603 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 610130009604 Cl- selectivity filter; other site 610130009605 Cl- binding residues [ion binding]; other site 610130009606 pore gating glutamate residue; other site 610130009607 dimer interface [polypeptide binding]; other site 610130009608 H+/Cl- coupling transport residue; other site 610130009609 TrkA-C domain; Region: TrkA_C; pfam02080 610130009610 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 610130009611 regulatory protein interface [polypeptide binding]; other site 610130009612 regulatory phosphorylation site [posttranslational modification]; other site 610130009613 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 610130009614 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 610130009615 Transposase IS200 like; Region: Y1_Tnp; pfam01797 610130009616 cell division protein MraZ; Reviewed; Region: PRK00326 610130009617 YodL-like; Region: YodL; pfam14191 610130009618 SpoVG; Region: SpoVG; pfam04026 610130009619 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 610130009620 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 610130009621 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 610130009622 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 610130009623 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 610130009624 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130009625 Walker A motif; other site 610130009626 ATP binding site [chemical binding]; other site 610130009627 Walker B motif; other site 610130009628 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 610130009629 Fungal Rad9-like Rad53-binding; Region: Rad9_Rad53_bind; pfam08605 610130009630 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 610130009631 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 610130009632 Methyltransferase domain; Region: Methyltransf_31; pfam13847 610130009633 S-adenosylmethionine binding site [chemical binding]; other site 610130009634 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 610130009635 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 610130009636 homodimer interaction site [polypeptide binding]; other site 610130009637 cofactor binding site; other site 610130009638 AAA-like domain; Region: AAA_10; pfam12846 610130009639 Domain of unknown function DUF87; Region: DUF87; pfam01935 610130009640 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 610130009641 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 610130009642 putative active site pocket [active] 610130009643 dimerization interface [polypeptide binding]; other site 610130009644 putative catalytic residue [active] 610130009645 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 610130009646 Peptidase family M23; Region: Peptidase_M23; pfam01551 610130009647 Protein of unknown function (DUF3782); Region: DUF3782; pfam12644 610130009648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130009649 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 610130009650 Coenzyme A binding pocket [chemical binding]; other site 610130009651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130009652 Coenzyme A binding pocket [chemical binding]; other site 610130009653 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 610130009654 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130009655 DNA binding residues [nucleotide binding] 610130009656 dimer interface [polypeptide binding]; other site 610130009657 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 610130009658 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 610130009659 Sel1-like repeats; Region: SEL1; smart00671 610130009660 Sel1-like repeats; Region: SEL1; smart00671 610130009661 Sel1-like repeats; Region: SEL1; smart00671 610130009662 Sel1-like repeats; Region: SEL1; smart00671 610130009663 Sel1-like repeats; Region: SEL1; smart00671 610130009664 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 610130009665 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 610130009666 active site 610130009667 metal binding site [ion binding]; metal-binding site 610130009668 interdomain interaction site; other site 610130009669 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 610130009670 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 610130009671 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130009672 Walker A motif; other site 610130009673 ATP binding site [chemical binding]; other site 610130009674 Walker B motif; other site 610130009675 Helix-turn-helix domain; Region: HTH_36; pfam13730 610130009676 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130009677 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 610130009678 non-specific DNA binding site [nucleotide binding]; other site 610130009679 salt bridge; other site 610130009680 sequence-specific DNA binding site [nucleotide binding]; other site 610130009681 Methyltransferase domain; Region: Methyltransf_31; pfam13847 610130009682 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 610130009683 S-adenosylmethionine binding site [chemical binding]; other site 610130009684 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 610130009685 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 610130009686 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 610130009687 Helix-turn-helix domain; Region: HTH_17; pfam12728 610130009688 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130009689 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 610130009690 active site 610130009691 phosphorylation site [posttranslational modification] 610130009692 intermolecular recognition site; other site 610130009693 dimerization interface [polypeptide binding]; other site 610130009694 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 610130009695 DNA binding site [nucleotide binding] 610130009696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130009697 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 610130009698 dimer interface [polypeptide binding]; other site 610130009699 phosphorylation site [posttranslational modification] 610130009700 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 610130009701 ATP binding site [chemical binding]; other site 610130009702 Mg2+ binding site [ion binding]; other site 610130009703 G-X-G motif; other site 610130009704 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130009705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130009706 Walker A/P-loop; other site 610130009707 ATP binding site [chemical binding]; other site 610130009708 Q-loop/lid; other site 610130009709 ABC transporter signature motif; other site 610130009710 Walker B; other site 610130009711 D-loop; other site 610130009712 H-loop/switch region; other site 610130009713 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 610130009714 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 610130009715 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 610130009716 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 610130009717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130009718 Walker A/P-loop; other site 610130009719 ATP binding site [chemical binding]; other site 610130009720 Q-loop/lid; other site 610130009721 ABC transporter signature motif; other site 610130009722 Walker B; other site 610130009723 D-loop; other site 610130009724 H-loop/switch region; other site 610130009725 Predicted transcriptional regulators [Transcription]; Region: COG1725 610130009726 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130009727 DNA-binding site [nucleotide binding]; DNA binding site 610130009728 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130009729 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; cl17257 610130009730 DNA binding residues [nucleotide binding] 610130009731 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 610130009732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 610130009733 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 610130009734 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 610130009735 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 610130009736 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 610130009737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 610130009738 Transposase; Region: HTH_Tnp_1; cl17663 610130009739 Transposase IS200 like; Region: Y1_Tnp; pfam01797 610130009740 VanZ like family; Region: VanZ; cl01971 610130009741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130009742 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 610130009743 dimer interface [polypeptide binding]; other site 610130009744 phosphorylation site [posttranslational modification] 610130009745 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 610130009746 ATP binding site [chemical binding]; other site 610130009747 Mg2+ binding site [ion binding]; other site 610130009748 G-X-G motif; other site 610130009749 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130009750 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 610130009751 active site 610130009752 phosphorylation site [posttranslational modification] 610130009753 intermolecular recognition site; other site 610130009754 dimerization interface [polypeptide binding]; other site 610130009755 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 610130009756 DNA binding site [nucleotide binding] 610130009757 Helix-turn-helix domain; Region: HTH_17; pfam12728 610130009758 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130009759 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 610130009760 DNA binding residues [nucleotide binding] 610130009761 PemK-like protein; Region: PemK; pfam02452 610130009762 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130009763 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 610130009764 catalytic residues [active] 610130009765 catalytic nucleophile [active] 610130009766 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130009767 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 610130009768 catalytic residues [active] 610130009769 catalytic nucleophile [active] 610130009770 Recombinase; Region: Recombinase; pfam07508 610130009771 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130009772 Recombinase; Region: Recombinase; pfam07508 610130009773 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130009774 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130009775 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 610130009776 catalytic residues [active] 610130009777 catalytic nucleophile [active] 610130009778 Recombinase; Region: Recombinase; pfam07508 610130009779 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130009780 Helix-turn-helix domain; Region: HTH_17; pfam12728 610130009781 FRG domain; Region: FRG; pfam08867 610130009782 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 610130009783 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 610130009784 Walker A motif; other site 610130009785 ATP binding site [chemical binding]; other site 610130009786 Walker B motif; other site 610130009787 arginine finger; other site 610130009788 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 610130009789 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 610130009790 G1 box; other site 610130009791 putative GEF interaction site [polypeptide binding]; other site 610130009792 GTP/Mg2+ binding site [chemical binding]; other site 610130009793 Switch I region; other site 610130009794 G2 box; other site 610130009795 G3 box; other site 610130009796 Switch II region; other site 610130009797 G4 box; other site 610130009798 G5 box; other site 610130009799 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 610130009800 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 610130009801 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 610130009802 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 610130009803 homopentamer interface [polypeptide binding]; other site 610130009804 active site 610130009805 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 610130009806 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 610130009807 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 610130009808 dimerization interface [polypeptide binding]; other site 610130009809 active site 610130009810 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 610130009811 Lumazine binding domain; Region: Lum_binding; pfam00677 610130009812 Lumazine binding domain; Region: Lum_binding; pfam00677 610130009813 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 610130009814 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 610130009815 catalytic motif [active] 610130009816 Zn binding site [ion binding]; other site 610130009817 RibD C-terminal domain; Region: RibD_C; cl17279 610130009818 H+ Antiporter protein; Region: 2A0121; TIGR00900 610130009819 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130009820 putative substrate translocation pore; other site 610130009821 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 610130009822 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 610130009823 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 610130009824 dimer interface [polypeptide binding]; other site 610130009825 conserved gate region; other site 610130009826 putative PBP binding loops; other site 610130009827 ABC-ATPase subunit interface; other site 610130009828 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 610130009829 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 610130009830 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 610130009831 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 610130009832 Walker A/P-loop; other site 610130009833 ATP binding site [chemical binding]; other site 610130009834 Q-loop/lid; other site 610130009835 ABC transporter signature motif; other site 610130009836 Walker B; other site 610130009837 D-loop; other site 610130009838 H-loop/switch region; other site 610130009839 FOG: CBS domain [General function prediction only]; Region: COG0517 610130009840 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 610130009841 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130009842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130009843 DNA-binding site [nucleotide binding]; DNA binding site 610130009844 TrkA-C domain; Region: TrkA_C; pfam02080 610130009845 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 610130009846 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 610130009847 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130009848 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 610130009849 non-specific DNA binding site [nucleotide binding]; other site 610130009850 salt bridge; other site 610130009851 sequence-specific DNA binding site [nucleotide binding]; other site 610130009852 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 610130009853 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 610130009854 non-heme iron binding site [ion binding]; other site 610130009855 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 610130009856 GIY-YIG motif/motif A; other site 610130009857 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130009858 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 610130009859 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130009860 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 610130009861 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130009862 PAS fold; Region: PAS_4; pfam08448 610130009863 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 610130009864 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 610130009865 putative active site [active] 610130009866 heme pocket [chemical binding]; other site 610130009867 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 610130009868 putative active site [active] 610130009869 heme pocket [chemical binding]; other site 610130009870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130009871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130009872 metal binding site [ion binding]; metal-binding site 610130009873 active site 610130009874 I-site; other site 610130009875 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 610130009876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130009877 Zn2+ binding site [ion binding]; other site 610130009878 Mg2+ binding site [ion binding]; other site 610130009879 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 610130009880 FAD binding domain; Region: FAD_binding_4; pfam01565 610130009881 Berberine and berberine like; Region: BBE; pfam08031 610130009882 Transcriptional regulators [Transcription]; Region: MarR; COG1846 610130009883 MarR family; Region: MarR; pfam01047 610130009884 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 610130009885 catalytic residues [active] 610130009886 dimer interface [polypeptide binding]; other site 610130009887 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 610130009888 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130009889 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130009890 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 610130009891 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 610130009892 active site residue [active] 610130009893 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 610130009894 CPxP motif; other site 610130009895 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 610130009896 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 610130009897 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 610130009898 active site 610130009899 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 610130009900 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 610130009901 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 610130009902 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 610130009903 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 610130009904 putative active site [active] 610130009905 putative metal binding site [ion binding]; other site 610130009906 N-terminal catalytic domain of mainly uncharacterized eukaryotic proteins similar to alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_like_1; cd10791 610130009907 putative active site [active] 610130009908 catalytic site [active] 610130009909 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 610130009910 active site 610130009911 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130009912 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 610130009913 dimer interface [polypeptide binding]; other site 610130009914 conserved gate region; other site 610130009915 putative PBP binding loops; other site 610130009916 ABC-ATPase subunit interface; other site 610130009917 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130009918 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 610130009919 dimer interface [polypeptide binding]; other site 610130009920 conserved gate region; other site 610130009921 putative PBP binding loops; other site 610130009922 ABC-ATPase subunit interface; other site 610130009923 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130009924 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130009925 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130009926 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130009927 DNA-binding site [nucleotide binding]; DNA binding site 610130009928 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130009929 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 610130009930 dimerization interface [polypeptide binding]; other site 610130009931 ligand binding site [chemical binding]; other site 610130009932 EDD domain protein, DegV family; Region: DegV; TIGR00762 610130009933 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 610130009934 heat shock protein 90; Provisional; Region: PRK05218 610130009935 ATP binding site [chemical binding]; other site 610130009936 Mg2+ binding site [ion binding]; other site 610130009937 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 610130009938 G-X-G motif; other site 610130009939 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 610130009940 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 610130009941 active site 610130009942 metal binding site [ion binding]; metal-binding site 610130009943 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 610130009944 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 610130009945 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 610130009946 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 610130009947 active site 610130009948 motif I; other site 610130009949 motif II; other site 610130009950 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 610130009951 Maf-like protein; Region: Maf; pfam02545 610130009952 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 610130009953 active site 610130009954 dimer interface [polypeptide binding]; other site 610130009955 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 610130009956 Divergent PAP2 family; Region: DUF212; pfam02681 610130009957 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 610130009958 glycogen synthase; Provisional; Region: glgA; PRK00654 610130009959 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 610130009960 ADP-binding pocket [chemical binding]; other site 610130009961 homodimer interface [polypeptide binding]; other site 610130009962 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 610130009963 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 610130009964 active site 610130009965 phosphorylation site [posttranslational modification] 610130009966 intermolecular recognition site; other site 610130009967 dimerization interface [polypeptide binding]; other site 610130009968 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 610130009969 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 610130009970 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 610130009971 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 610130009972 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 610130009973 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 610130009974 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 610130009975 dimerization interface [polypeptide binding]; other site 610130009976 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130009977 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130009978 dimer interface [polypeptide binding]; other site 610130009979 putative CheW interface [polypeptide binding]; other site 610130009980 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 610130009981 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 610130009982 active site 610130009983 DNA binding site [nucleotide binding] 610130009984 Int/Topo IB signature motif; other site 610130009985 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 610130009986 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 610130009987 Walker A/P-loop; other site 610130009988 ATP binding site [chemical binding]; other site 610130009989 Q-loop/lid; other site 610130009990 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 610130009991 ABC transporter signature motif; other site 610130009992 Walker B; other site 610130009993 D-loop; other site 610130009994 H-loop/switch region; other site 610130009995 arginine repressor; Provisional; Region: argR; PRK00441 610130009996 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 610130009997 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 610130009998 ATP-NAD kinase; Region: NAD_kinase; pfam01513 610130009999 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 610130010000 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 610130010001 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 610130010002 RNA binding surface [nucleotide binding]; other site 610130010003 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 610130010004 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 610130010005 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 610130010006 TPP-binding site; other site 610130010007 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 610130010008 PYR/PP interface [polypeptide binding]; other site 610130010009 dimer interface [polypeptide binding]; other site 610130010010 TPP binding site [chemical binding]; other site 610130010011 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 610130010012 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 610130010013 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 610130010014 substrate binding pocket [chemical binding]; other site 610130010015 chain length determination region; other site 610130010016 substrate-Mg2+ binding site; other site 610130010017 catalytic residues [active] 610130010018 aspartate-rich region 1; other site 610130010019 active site lid residues [active] 610130010020 aspartate-rich region 2; other site 610130010021 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 610130010022 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 610130010023 generic binding surface II; other site 610130010024 generic binding surface I; other site 610130010025 transcription antitermination factor NusB; Region: nusB; TIGR01951 610130010026 putative RNA binding site [nucleotide binding]; other site 610130010027 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 610130010028 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 610130010029 NAD binding site [chemical binding]; other site 610130010030 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 610130010031 aspartate dehydrogenase; Region: NAD_NadX; TIGR03855 610130010032 Domain of unknown function DUF108; Region: DUF108; pfam01958 610130010033 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130010034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130010035 metal binding site [ion binding]; metal-binding site 610130010036 active site 610130010037 I-site; other site 610130010038 Asp23 family; Region: Asp23; pfam03780 610130010039 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 610130010040 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 610130010041 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 610130010042 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 610130010043 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 610130010044 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 610130010045 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 610130010046 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; pfam09548 610130010047 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 610130010048 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130010049 Walker A motif; other site 610130010050 ATP binding site [chemical binding]; other site 610130010051 NTPase; Region: NTPase_1; cl17478 610130010052 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130010053 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130010054 Domain of unknown function, E. rectale Gene description (DUF3877); Region: DUF3877; pfam12993 610130010055 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 610130010056 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 610130010057 catalytic residue [active] 610130010058 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 610130010059 catalytic residues [active] 610130010060 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130010061 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130010062 peroxiredoxin; Region: AhpC; TIGR03137 610130010063 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 610130010064 dimer interface [polypeptide binding]; other site 610130010065 decamer (pentamer of dimers) interface [polypeptide binding]; other site 610130010066 catalytic triad [active] 610130010067 peroxidatic and resolving cysteines [active] 610130010068 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 610130010069 Mor transcription activator family; Region: Mor; cl02360 610130010070 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 610130010071 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 610130010072 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 610130010073 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 610130010074 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 610130010075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130010076 Coenzyme A binding pocket [chemical binding]; other site 610130010077 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130010078 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 610130010079 active site 610130010080 phosphorylation site [posttranslational modification] 610130010081 intermolecular recognition site; other site 610130010082 dimerization interface [polypeptide binding]; other site 610130010083 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 610130010084 DNA binding site [nucleotide binding] 610130010085 SLBB domain; Region: SLBB; pfam10531 610130010086 comEA protein; Region: comE; TIGR01259 610130010087 Helix-hairpin-helix motif; Region: HHH; pfam00633 610130010088 Protein of unknown function, DUF606; Region: DUF606; pfam04657 610130010089 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 610130010090 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 610130010091 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 610130010092 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 610130010093 homodimer interface [polypeptide binding]; other site 610130010094 NADP binding site [chemical binding]; other site 610130010095 substrate binding site [chemical binding]; other site 610130010096 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 610130010097 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 610130010098 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130010099 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 610130010100 substrate binding site [chemical binding]; other site 610130010101 dimer interface [polypeptide binding]; other site 610130010102 ATP binding site [chemical binding]; other site 610130010103 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130010104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130010105 DNA binding site [nucleotide binding] 610130010106 domain linker motif; other site 610130010107 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 610130010108 dimerization interface [polypeptide binding]; other site 610130010109 ligand binding site [chemical binding]; other site 610130010110 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 610130010111 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 610130010112 metal binding site [ion binding]; metal-binding site 610130010113 dimer interface [polypeptide binding]; other site 610130010114 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 610130010115 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 610130010116 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 610130010117 metal binding site [ion binding]; metal-binding site 610130010118 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 610130010119 active site 610130010120 tetramer interface [polypeptide binding]; other site 610130010121 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130010122 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 610130010123 TM-ABC transporter signature motif; other site 610130010124 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130010125 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 610130010126 TM-ABC transporter signature motif; other site 610130010127 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 610130010128 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130010129 Walker A/P-loop; other site 610130010130 ATP binding site [chemical binding]; other site 610130010131 Q-loop/lid; other site 610130010132 ABC transporter signature motif; other site 610130010133 Walker B; other site 610130010134 D-loop; other site 610130010135 H-loop/switch region; other site 610130010136 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130010137 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 610130010138 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130010139 ligand binding site [chemical binding]; other site 610130010140 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130010141 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130010142 DNA binding site [nucleotide binding] 610130010143 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 610130010144 dimerization interface [polypeptide binding]; other site 610130010145 ligand binding site [chemical binding]; other site 610130010146 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130010147 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 610130010148 substrate binding site [chemical binding]; other site 610130010149 dimer interface [polypeptide binding]; other site 610130010150 ATP binding site [chemical binding]; other site 610130010151 Cache domain; Region: Cache_1; pfam02743 610130010152 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 610130010153 dimerization interface [polypeptide binding]; other site 610130010154 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130010155 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130010156 dimer interface [polypeptide binding]; other site 610130010157 putative CheW interface [polypeptide binding]; other site 610130010158 acetylornithine aminotransferase; Provisional; Region: PRK02627 610130010159 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 610130010160 inhibitor-cofactor binding pocket; inhibition site 610130010161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130010162 catalytic residue [active] 610130010163 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 610130010164 feedback inhibition sensing region; other site 610130010165 homohexameric interface [polypeptide binding]; other site 610130010166 nucleotide binding site [chemical binding]; other site 610130010167 N-acetyl-L-glutamate binding site [chemical binding]; other site 610130010168 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 610130010169 heterotetramer interface [polypeptide binding]; other site 610130010170 active site pocket [active] 610130010171 cleavage site 610130010172 Uncharacterized conserved protein [Function unknown]; Region: COG3603 610130010173 Family description; Region: ACT_7; pfam13840 610130010174 putative acetyltransferase; Provisional; Region: PRK03624 610130010175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130010176 Coenzyme A binding pocket [chemical binding]; other site 610130010177 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 610130010178 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 610130010179 argininosuccinate synthase; Provisional; Region: PRK13820 610130010180 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 610130010181 ANP binding site [chemical binding]; other site 610130010182 Substrate Binding Site II [chemical binding]; other site 610130010183 Substrate Binding Site I [chemical binding]; other site 610130010184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130010185 Coenzyme A binding pocket [chemical binding]; other site 610130010186 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 610130010187 nucleophile elbow; other site 610130010188 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130010189 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 610130010190 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 610130010191 active site 610130010192 metal binding site [ion binding]; metal-binding site 610130010193 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 610130010194 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 610130010195 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 610130010196 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 610130010197 trimerization site [polypeptide binding]; other site 610130010198 active site 610130010199 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 610130010200 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 610130010201 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130010202 catalytic residue [active] 610130010203 stage V sporulation protein B; Region: spore_V_B; TIGR02900 610130010204 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 610130010205 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 610130010206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130010207 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 610130010208 Walker A/P-loop; other site 610130010209 ATP binding site [chemical binding]; other site 610130010210 Q-loop/lid; other site 610130010211 ABC transporter signature motif; other site 610130010212 Walker B; other site 610130010213 D-loop; other site 610130010214 H-loop/switch region; other site 610130010215 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 610130010216 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 610130010217 dimer interface [polypeptide binding]; other site 610130010218 conserved gate region; other site 610130010219 putative PBP binding loops; other site 610130010220 ABC-ATPase subunit interface; other site 610130010221 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 610130010222 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 610130010223 Helix-turn-helix domain; Region: HTH_17; pfam12728 610130010224 PBP superfamily domain; Region: PBP_like; pfam12727 610130010225 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 610130010226 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 610130010227 Nitrogen regulatory protein P-II; Region: P-II; smart00938 610130010228 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 610130010229 Glyco_18 domain; Region: Glyco_18; smart00636 610130010230 active site 610130010231 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; cd02062 610130010232 FMN binding site [chemical binding]; other site 610130010233 dimer interface [polypeptide binding]; other site 610130010234 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 610130010235 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 610130010236 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130010237 Coenzyme A binding pocket [chemical binding]; other site 610130010238 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 610130010239 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 610130010240 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 610130010241 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130010242 Coenzyme A binding pocket [chemical binding]; other site 610130010243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 610130010244 Helix-turn-helix domain; Region: HTH_28; pfam13518 610130010245 Helix-turn-helix domain; Region: HTH_28; pfam13518 610130010246 HTH-like domain; Region: HTH_21; pfam13276 610130010247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 610130010248 Integrase core domain; Region: rve; pfam00665 610130010249 Integrase core domain; Region: rve_2; pfam13333 610130010250 Homoserine O-succinyltransferase; Region: HTS; pfam04204 610130010251 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 610130010252 proposed active site lysine [active] 610130010253 conserved cys residue [active] 610130010254 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 610130010255 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; cl03295 610130010256 nucleotide binding pocket [chemical binding]; other site 610130010257 K-X-D-G motif; other site 610130010258 catalytic site [active] 610130010259 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 610130010260 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 610130010261 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 610130010262 Dimer interface [polypeptide binding]; other site 610130010263 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 610130010264 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 610130010265 RNA binding surface [nucleotide binding]; other site 610130010266 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 610130010267 probable active site [active] 610130010268 Hemerythrin; Region: Hemerythrin; cd12107 610130010269 Fe binding site [ion binding]; other site 610130010270 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 610130010271 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 610130010272 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130010273 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 610130010274 putative catalytic residues [active] 610130010275 catalytic nucleophile [active] 610130010276 Recombinase; Region: Recombinase; pfam07508 610130010277 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130010278 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 610130010279 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 610130010280 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 610130010281 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130010282 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 610130010283 minor groove reading motif; other site 610130010284 endonuclease III; Region: ENDO3c; smart00478 610130010285 helix-hairpin-helix signature motif; other site 610130010286 substrate binding pocket [chemical binding]; other site 610130010287 active site 610130010288 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 610130010289 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 610130010290 DNA binding site [nucleotide binding] 610130010291 active site 610130010292 Dehydratase family; Region: ILVD_EDD; pfam00920 610130010293 Transcriptional regulators [Transcription]; Region: FadR; COG2186 610130010294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130010295 DNA-binding site [nucleotide binding]; DNA binding site 610130010296 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 610130010297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 610130010298 Helix-turn-helix domain; Region: HTH_28; pfam13518 610130010299 Helix-turn-helix domain; Region: HTH_28; pfam13518 610130010300 HTH-like domain; Region: HTH_21; pfam13276 610130010301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 610130010302 Integrase core domain; Region: rve; pfam00665 610130010303 Integrase core domain; Region: rve_2; pfam13333 610130010304 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 610130010305 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 610130010306 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 610130010307 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 610130010308 catalytic residues [active] 610130010309 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 610130010310 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 610130010311 G1 box; other site 610130010312 GTP/Mg2+ binding site [chemical binding]; other site 610130010313 Switch I region; other site 610130010314 G2 box; other site 610130010315 G3 box; other site 610130010316 Switch II region; other site 610130010317 G4 box; other site 610130010318 G5 box; other site 610130010319 Nucleoside recognition; Region: Gate; pfam07670 610130010320 FeoA domain; Region: FeoA; pfam04023 610130010321 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 610130010322 Response regulator receiver domain; Region: Response_reg; pfam00072 610130010323 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 610130010324 active site 610130010325 phosphorylation site [posttranslational modification] 610130010326 intermolecular recognition site; other site 610130010327 dimerization interface [polypeptide binding]; other site 610130010328 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130010329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130010330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130010331 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 610130010332 dimerization interface [polypeptide binding]; other site 610130010333 Histidine kinase; Region: His_kinase; pfam06580 610130010334 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 610130010335 ATP binding site [chemical binding]; other site 610130010336 Mg2+ binding site [ion binding]; other site 610130010337 G-X-G motif; other site 610130010338 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130010339 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 610130010340 dimer interface [polypeptide binding]; other site 610130010341 conserved gate region; other site 610130010342 putative PBP binding loops; other site 610130010343 ABC-ATPase subunit interface; other site 610130010344 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 610130010345 dimer interface [polypeptide binding]; other site 610130010346 conserved gate region; other site 610130010347 putative PBP binding loops; other site 610130010348 ABC-ATPase subunit interface; other site 610130010349 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130010350 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130010351 Penicillinase repressor; Region: Pencillinase_R; pfam03965 610130010352 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 610130010353 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 610130010354 RHS Repeat; Region: RHS_repeat; pfam05593 610130010355 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 610130010356 RHS Repeat; Region: RHS_repeat; pfam05593 610130010357 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 610130010358 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 610130010359 dockerin binding interface; other site 610130010360 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 610130010361 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 610130010362 active site 610130010363 DNA binding site [nucleotide binding] 610130010364 Int/Topo IB signature motif; other site 610130010365 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 610130010366 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 610130010367 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 610130010368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 610130010369 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 610130010370 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 610130010371 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 610130010372 isocitrate dehydrogenase; Validated; Region: PRK08299 610130010373 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 610130010374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130010375 Coenzyme A binding pocket [chemical binding]; other site 610130010376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130010377 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130010378 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 610130010379 putative dimerization interface [polypeptide binding]; other site 610130010380 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 610130010381 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 610130010382 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130010383 catalytic residue [active] 610130010384 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 610130010385 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 610130010386 GatB domain; Region: GatB_Yqey; smart00845 610130010387 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 610130010388 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 610130010389 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 610130010390 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 610130010391 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 610130010392 Dimer interface [polypeptide binding]; other site 610130010393 anticodon binding site; other site 610130010394 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 610130010395 motif 1; other site 610130010396 dimer interface [polypeptide binding]; other site 610130010397 active site 610130010398 motif 2; other site 610130010399 motif 3; other site 610130010400 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 610130010401 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130010402 YacP-like NYN domain; Region: NYN_YacP; pfam05991 610130010403 Predicted membrane protein [Function unknown]; Region: COG1971 610130010404 Domain of unknown function DUF; Region: DUF204; pfam02659 610130010405 Domain of unknown function DUF; Region: DUF204; pfam02659 610130010406 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 610130010407 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 610130010408 Ca binding site [ion binding]; other site 610130010409 active site 610130010410 catalytic site [active] 610130010411 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 610130010412 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 610130010413 active site turn [active] 610130010414 phosphorylation site [posttranslational modification] 610130010415 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130010416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130010417 DNA-binding site [nucleotide binding]; DNA binding site 610130010418 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 610130010419 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 610130010420 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130010421 Zn2+ binding site [ion binding]; other site 610130010422 Mg2+ binding site [ion binding]; other site 610130010423 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130010424 Zn2+ binding site [ion binding]; other site 610130010425 Mg2+ binding site [ion binding]; other site 610130010426 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 610130010427 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 610130010428 active site 610130010429 HIGH motif; other site 610130010430 dimer interface [polypeptide binding]; other site 610130010431 KMSKS motif; other site 610130010432 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 610130010433 RNA binding surface [nucleotide binding]; other site 610130010434 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 610130010435 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 610130010436 predicted active site [active] 610130010437 catalytic triad [active] 610130010438 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 610130010439 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 610130010440 active site 610130010441 multimer interface [polypeptide binding]; other site 610130010442 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130010443 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 610130010444 NAD binding site [chemical binding]; other site 610130010445 sugar binding site [chemical binding]; other site 610130010446 divalent metal binding site [ion binding]; other site 610130010447 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130010448 dimer interface [polypeptide binding]; other site 610130010449 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130010450 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 610130010451 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; cl00164 610130010452 active site turn [active] 610130010453 phosphorylation site [posttranslational modification] 610130010454 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130010455 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130010456 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 610130010457 putative active site [active] 610130010458 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 610130010459 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 610130010460 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 610130010461 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 610130010462 ligand binding site [chemical binding]; other site 610130010463 active site 610130010464 UGI interface [polypeptide binding]; other site 610130010465 catalytic site [active] 610130010466 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 610130010467 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 610130010468 substrate binding site [chemical binding]; other site 610130010469 glutamase interaction surface [polypeptide binding]; other site 610130010470 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 610130010471 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 610130010472 putative active site [active] 610130010473 oxyanion strand; other site 610130010474 catalytic triad [active] 610130010475 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 610130010476 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 610130010477 putative RNA binding site [nucleotide binding]; other site 610130010478 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 610130010479 S-adenosylmethionine binding site [chemical binding]; other site 610130010480 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 610130010481 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 610130010482 active site 610130010483 catalytic tetrad [active] 610130010484 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 610130010485 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 610130010486 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 610130010487 Walker A/P-loop; other site 610130010488 ATP binding site [chemical binding]; other site 610130010489 Q-loop/lid; other site 610130010490 ABC transporter signature motif; other site 610130010491 Walker B; other site 610130010492 D-loop; other site 610130010493 H-loop/switch region; other site 610130010494 Predicted transcriptional regulators [Transcription]; Region: COG1725 610130010495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130010496 DNA-binding site [nucleotide binding]; DNA binding site 610130010497 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 610130010498 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 610130010499 NodB motif; other site 610130010500 active site 610130010501 catalytic site [active] 610130010502 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 610130010503 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 610130010504 active site 610130010505 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 610130010506 DRTGG domain; Region: DRTGG; pfam07085 610130010507 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 610130010508 4Fe-4S binding domain; Region: Fer4_6; pfam12837 610130010509 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 610130010510 Putative Fe-S cluster; Region: FeS; cl17515 610130010511 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 610130010512 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 610130010513 ATP binding site [chemical binding]; other site 610130010514 Mg2+ binding site [ion binding]; other site 610130010515 G-X-G motif; other site 610130010516 DRTGG domain; Region: DRTGG; pfam07085 610130010517 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 610130010518 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 610130010519 putative dimer interface [polypeptide binding]; other site 610130010520 [2Fe-2S] cluster binding site [ion binding]; other site 610130010521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130010522 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 610130010523 ATP binding site [chemical binding]; other site 610130010524 Mg2+ binding site [ion binding]; other site 610130010525 G-X-G motif; other site 610130010526 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 610130010527 dimer interface [polypeptide binding]; other site 610130010528 [2Fe-2S] cluster binding site [ion binding]; other site 610130010529 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 610130010530 dimer interface [polypeptide binding]; other site 610130010531 [2Fe-2S] cluster binding site [ion binding]; other site 610130010532 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 610130010533 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 610130010534 4Fe-4S binding domain; Region: Fer4; pfam00037 610130010535 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130010536 4Fe-4S binding domain; Region: Fer4; pfam00037 610130010537 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 610130010538 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 610130010539 catalytic loop [active] 610130010540 iron binding site [ion binding]; other site 610130010541 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 610130010542 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 610130010543 4Fe-4S binding domain; Region: Fer4; pfam00037 610130010544 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 610130010545 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 610130010546 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130010547 dimer interface [polypeptide binding]; other site 610130010548 putative CheW interface [polypeptide binding]; other site 610130010549 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 610130010550 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 610130010551 Coat F domain; Region: Coat_F; pfam07875 610130010552 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 610130010553 4Fe-4S binding domain; Region: Fer4; pfam00037 610130010554 4Fe-4S binding domain; Region: Fer4_6; pfam12837 610130010555 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 610130010556 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 610130010557 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 610130010558 4Fe-4S binding domain; Region: Fer4; pfam00037 610130010559 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 610130010560 Putative Fe-S cluster; Region: FeS; cl17515 610130010561 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 610130010562 PAS domain; Region: PAS_9; pfam13426 610130010563 putative active site [active] 610130010564 heme pocket [chemical binding]; other site 610130010565 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 610130010566 dimer interface [polypeptide binding]; other site 610130010567 [2Fe-2S] cluster binding site [ion binding]; other site 610130010568 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 610130010569 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 610130010570 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 610130010571 active site 610130010572 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 610130010573 purine nucleoside phosphorylase; Provisional; Region: PRK08202 610130010574 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 610130010575 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 610130010576 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 610130010577 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 610130010578 dimer interface [polypeptide binding]; other site 610130010579 conserved gate region; other site 610130010580 putative PBP binding loops; other site 610130010581 ABC-ATPase subunit interface; other site 610130010582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130010583 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 610130010584 Walker A/P-loop; other site 610130010585 ATP binding site [chemical binding]; other site 610130010586 Q-loop/lid; other site 610130010587 ABC transporter signature motif; other site 610130010588 Walker B; other site 610130010589 D-loop; other site 610130010590 H-loop/switch region; other site 610130010591 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 610130010592 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 610130010593 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 610130010594 DNA binding site [nucleotide binding] 610130010595 active site 610130010596 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130010597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130010598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 610130010599 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 610130010600 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130010601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130010602 Walker A/P-loop; other site 610130010603 ATP binding site [chemical binding]; other site 610130010604 Q-loop/lid; other site 610130010605 ABC transporter signature motif; other site 610130010606 Walker B; other site 610130010607 D-loop; other site 610130010608 Transcriptional regulators [Transcription]; Region: MarR; COG1846 610130010609 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 610130010610 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 610130010611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130010612 Walker A/P-loop; other site 610130010613 ATP binding site [chemical binding]; other site 610130010614 Q-loop/lid; other site 610130010615 ABC transporter signature motif; other site 610130010616 Walker B; other site 610130010617 D-loop; other site 610130010618 H-loop/switch region; other site 610130010619 Protein of unknown function (DUF342); Region: DUF342; pfam03961 610130010620 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 610130010621 Response regulator receiver domain; Region: Response_reg; pfam00072 610130010622 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 610130010623 active site 610130010624 phosphorylation site [posttranslational modification] 610130010625 intermolecular recognition site; other site 610130010626 dimerization interface [polypeptide binding]; other site 610130010627 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 610130010628 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 610130010629 N-acetyl-D-glucosamine binding site [chemical binding]; other site 610130010630 catalytic residue [active] 610130010631 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130010632 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130010633 PilZ domain; Region: PilZ; pfam07238 610130010634 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 610130010635 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 610130010636 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 610130010637 putative binding surface; other site 610130010638 active site 610130010639 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 610130010640 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 610130010641 ATP binding site [chemical binding]; other site 610130010642 Mg2+ binding site [ion binding]; other site 610130010643 G-X-G motif; other site 610130010644 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 610130010645 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 610130010646 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 610130010647 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 610130010648 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 610130010649 S-adenosylmethionine binding site [chemical binding]; other site 610130010650 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 610130010651 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 610130010652 active site 610130010653 phosphorylation site [posttranslational modification] 610130010654 intermolecular recognition site; other site 610130010655 dimerization interface [polypeptide binding]; other site 610130010656 CheB methylesterase; Region: CheB_methylest; pfam01339 610130010657 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 610130010658 FlgN protein; Region: FlgN; pfam05130 610130010659 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 610130010660 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 610130010661 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 610130010662 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 610130010663 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 610130010664 FliW protein; Region: FliW; cl00740 610130010665 Global regulator protein family; Region: CsrA; pfam02599 610130010666 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 610130010667 putative active site [active] 610130010668 Flagellar protein FliS; Region: FliS; cl00654 610130010669 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 610130010670 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 610130010671 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 610130010672 Late competence development protein ComFB; Region: ComFB; pfam10719 610130010673 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 610130010674 EAL domain; Region: EAL; pfam00563 610130010675 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 610130010676 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 610130010677 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 610130010678 active site 610130010679 phosphorylation site [posttranslational modification] 610130010680 intermolecular recognition site; other site 610130010681 dimerization interface [polypeptide binding]; other site 610130010682 CheD chemotactic sensory transduction; Region: CheD; cl00810 610130010683 CheC-like family; Region: CheC; pfam04509 610130010684 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 610130010685 CheC-like family; Region: CheC; pfam04509 610130010686 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 610130010687 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 610130010688 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 610130010689 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 610130010690 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 610130010691 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 610130010692 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 610130010693 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130010694 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 610130010695 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 610130010696 DNA binding residues [nucleotide binding] 610130010697 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 610130010698 FHIPEP family; Region: FHIPEP; pfam00771 610130010699 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 610130010700 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 610130010701 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 610130010702 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 610130010703 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 610130010704 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 610130010705 CheC-like family; Region: CheC; pfam04509 610130010706 CheC-like family; Region: CheC; pfam04509 610130010707 flagellar motor switch protein FliN; Region: fliN; TIGR02480 610130010708 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 610130010709 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 610130010710 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 610130010711 Response regulator receiver domain; Region: Response_reg; pfam00072 610130010712 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 610130010713 active site 610130010714 phosphorylation site [posttranslational modification] 610130010715 intermolecular recognition site; other site 610130010716 dimerization interface [polypeptide binding]; other site 610130010717 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 610130010718 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 610130010719 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 610130010720 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 610130010721 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 610130010722 ligand binding site [chemical binding]; other site 610130010723 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 610130010724 Flagellar protein (FlbD); Region: FlbD; pfam06289 610130010725 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 610130010726 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 610130010727 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 610130010728 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 610130010729 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 610130010730 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 610130010731 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 610130010732 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 610130010733 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 610130010734 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 610130010735 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 610130010736 Walker A motif/ATP binding site; other site 610130010737 Walker B motif; other site 610130010738 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 610130010739 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 610130010740 FliG C-terminal domain; Region: FliG_C; pfam01706 610130010741 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 610130010742 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 610130010743 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 610130010744 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 610130010745 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 610130010746 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 610130010747 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 610130010748 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 610130010749 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 610130010750 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 610130010751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 610130010752 NAD(P) binding site [chemical binding]; other site 610130010753 active site 610130010754 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 610130010755 dimer interface [polypeptide binding]; other site 610130010756 active site 610130010757 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 610130010758 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 610130010759 Radical SAM superfamily; Region: Radical_SAM; pfam04055 610130010760 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 610130010761 FeS/SAM binding site; other site 610130010762 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 610130010763 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 610130010764 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 610130010765 active site 610130010766 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 610130010767 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 610130010768 active site 610130010769 motif I; other site 610130010770 motif II; other site 610130010771 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 610130010772 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 610130010773 active site 610130010774 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 610130010775 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 610130010776 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 610130010777 putative metal binding site; other site 610130010778 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 610130010779 flagellin; Reviewed; Region: PRK08869 610130010780 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 610130010781 Putative motility protein; Region: YjfB_motility; pfam14070 610130010782 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130010783 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 610130010784 dimerization interface [polypeptide binding]; other site 610130010785 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 610130010786 dimer interface [polypeptide binding]; other site 610130010787 phosphorylation site [posttranslational modification] 610130010788 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 610130010789 ATP binding site [chemical binding]; other site 610130010790 Mg2+ binding site [ion binding]; other site 610130010791 G-X-G motif; other site 610130010792 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130010793 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 610130010794 active site 610130010795 phosphorylation site [posttranslational modification] 610130010796 intermolecular recognition site; other site 610130010797 dimerization interface [polypeptide binding]; other site 610130010798 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 610130010799 DNA binding site [nucleotide binding] 610130010800 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 610130010801 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 610130010802 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130010803 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130010804 dimer interface [polypeptide binding]; other site 610130010805 putative CheW interface [polypeptide binding]; other site 610130010806 Part of AAA domain; Region: AAA_19; pfam13245 610130010807 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 610130010808 Family description; Region: UvrD_C_2; pfam13538 610130010809 AAA ATPase domain; Region: AAA_15; pfam13175 610130010810 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 610130010811 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 610130010812 putative active site [active] 610130010813 putative metal-binding site [ion binding]; other site 610130010814 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; cl02788 610130010815 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130010816 catalytic residues [active] 610130010817 catalytic nucleophile [active] 610130010818 Recombinase; Region: Recombinase; pfam07508 610130010819 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130010820 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; cl02788 610130010821 catalytic residues [active] 610130010822 catalytic nucleophile [active] 610130010823 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130010824 Recombinase; Region: Recombinase; pfam07508 610130010825 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130010826 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130010827 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; cl02788 610130010828 catalytic residues [active] 610130010829 catalytic nucleophile [active] 610130010830 Recombinase; Region: Recombinase; pfam07508 610130010831 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130010832 LAG1, DNA binding; Region: LAG1-DNAbind; pfam09271 610130010833 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 610130010834 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 610130010835 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 610130010836 nucleotide binding region [chemical binding]; other site 610130010837 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 610130010838 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 610130010839 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 610130010840 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 610130010841 S-layer homology domain; Region: SLH; pfam00395 610130010842 S-layer homology domain; Region: SLH; pfam00395 610130010843 S-layer homology domain; Region: SLH; pfam00395 610130010844 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 610130010845 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130010846 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 610130010847 putative active site [active] 610130010848 putative metal binding site [ion binding]; other site 610130010849 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 610130010850 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 610130010851 ATP binding site [chemical binding]; other site 610130010852 Mg2+ binding site [ion binding]; other site 610130010853 G-X-G motif; other site 610130010854 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130010855 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 610130010856 active site 610130010857 phosphorylation site [posttranslational modification] 610130010858 intermolecular recognition site; other site 610130010859 dimerization interface [polypeptide binding]; other site 610130010860 LytTr DNA-binding domain; Region: LytTR; smart00850 610130010861 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 610130010862 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 610130010863 DNA binding residues [nucleotide binding] 610130010864 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 610130010865 S-layer homology domain; Region: SLH; pfam00395 610130010866 S-layer homology domain; Region: SLH; pfam00395 610130010867 S-layer homology domain; Region: SLH; pfam00395 610130010868 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130010869 imidazolonepropionase; Validated; Region: PRK09356 610130010870 Short C-terminal domain; Region: SHOCT; pfam09851 610130010871 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 610130010872 LemA family; Region: LemA; cl00742 610130010873 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 610130010874 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130010875 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 610130010876 non-specific DNA binding site [nucleotide binding]; other site 610130010877 salt bridge; other site 610130010878 sequence-specific DNA binding site [nucleotide binding]; other site 610130010879 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130010880 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 610130010881 active site 610130010882 phosphorylation site [posttranslational modification] 610130010883 intermolecular recognition site; other site 610130010884 dimerization interface [polypeptide binding]; other site 610130010885 LytTr DNA-binding domain; Region: LytTR; smart00850 610130010886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130010887 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 610130010888 ATP binding site [chemical binding]; other site 610130010889 Mg2+ binding site [ion binding]; other site 610130010890 G-X-G motif; other site 610130010891 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 610130010892 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 610130010893 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; cd00063 610130010894 Interdomain contacts; other site 610130010895 Cytokine receptor motif; other site 610130010896 S-layer homology domain; Region: SLH; pfam00395 610130010897 S-layer homology domain; Region: SLH; pfam00395 610130010898 S-layer homology domain; Region: SLH; pfam00395 610130010899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 610130010900 active site 610130010901 phosphorylation site [posttranslational modification] 610130010902 intermolecular recognition site; other site 610130010903 dimerization interface [polypeptide binding]; other site 610130010904 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 610130010905 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 610130010906 active site 610130010907 phosphorylation site [posttranslational modification] 610130010908 intermolecular recognition site; other site 610130010909 dimerization interface [polypeptide binding]; other site 610130010910 LytTr DNA-binding domain; Region: LytTR; smart00850 610130010911 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130010912 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 610130010913 ATP binding site [chemical binding]; other site 610130010914 Mg2+ binding site [ion binding]; other site 610130010915 G-X-G motif; other site 610130010916 S-layer homology domain; Region: SLH; pfam00395 610130010917 S-layer homology domain; Region: SLH; pfam00395 610130010918 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130010919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130010920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130010921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130010922 DNA-binding site [nucleotide binding]; DNA binding site 610130010923 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 610130010924 putative active site [active] 610130010925 AAA-like domain; Region: AAA_10; pfam12846 610130010926 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 610130010927 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 610130010928 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 610130010929 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130010930 Walker A motif; other site 610130010931 ATP binding site [chemical binding]; other site 610130010932 Walker B motif; other site 610130010933 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 610130010934 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 610130010935 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 610130010936 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 610130010937 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 610130010938 cofactor binding site; other site 610130010939 DNA binding site [nucleotide binding] 610130010940 substrate interaction site [chemical binding]; other site 610130010941 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 610130010942 PrgI family protein; Region: PrgI; pfam12666 610130010943 SpoVG; Region: SpoVG; cl00915 610130010944 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 610130010945 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130010946 Walker A motif; other site 610130010947 ATP binding site [chemical binding]; other site 610130010948 Walker B motif; other site 610130010949 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 610130010950 non-specific DNA binding site [nucleotide binding]; other site 610130010951 salt bridge; other site 610130010952 sequence-specific DNA binding site [nucleotide binding]; other site 610130010953 Cobalamin biosynthesis protein CobN and related Mg-chelatases [Coenzyme metabolism]; Region: CobN; COG1429 610130010954 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 610130010955 dimerization interface [polypeptide binding]; other site 610130010956 putative DNA binding site [nucleotide binding]; other site 610130010957 putative Zn2+ binding site [ion binding]; other site 610130010958 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 610130010959 Sodium Bile acid symporter family; Region: SBF; cl17470 610130010960 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 610130010961 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 610130010962 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 610130010963 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 610130010964 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 610130010965 P loop; other site 610130010966 Nucleotide binding site [chemical binding]; other site 610130010967 DTAP/Switch II; other site 610130010968 Switch I; other site 610130010969 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 610130010970 P loop; other site 610130010971 Nucleotide binding site [chemical binding]; other site 610130010972 DTAP/Switch II; other site 610130010973 Switch I; other site 610130010974 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 610130010975 Low molecular weight phosphatase family; Region: LMWPc; cd00115 610130010976 active site 610130010977 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 610130010978 Toprim-like; Region: Toprim_2; pfam13155 610130010979 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 610130010980 Methyltransferase domain; Region: Methyltransf_26; pfam13659 610130010981 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 610130010982 DEAD-like helicases superfamily; Region: DEXDc; smart00487 610130010983 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 610130010984 helicase superfamily c-terminal domain; Region: HELICc; smart00490 610130010985 nucleotide binding region [chemical binding]; other site 610130010986 ATP-binding site [chemical binding]; other site 610130010987 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 610130010988 ParB-like nuclease domain; Region: ParBc; pfam02195 610130010989 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 610130010990 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 610130010991 P-loop; other site 610130010992 Magnesium ion binding site [ion binding]; other site 610130010993 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 610130010994 Magnesium ion binding site [ion binding]; other site 610130010995 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 610130010996 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 610130010997 active site 610130010998 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 610130010999 TPR motif; other site 610130011000 binding surface 610130011001 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 610130011002 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 610130011003 active site 610130011004 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 610130011005 TPR motif; other site 610130011006 binding surface 610130011007 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 610130011008 intersubunit interface [polypeptide binding]; other site 610130011009 active site 610130011010 Zn2+ binding site [ion binding]; other site 610130011011 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 610130011012 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 610130011013 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 610130011014 Phosphotransferase enzyme family; Region: APH; pfam01636 610130011015 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 610130011016 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 610130011017 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 610130011018 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 610130011019 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 610130011020 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 610130011021 dimer interface [polypeptide binding]; other site 610130011022 active site 610130011023 metal binding site [ion binding]; metal-binding site 610130011024 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 610130011025 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 610130011026 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130011027 Coenzyme A binding pocket [chemical binding]; other site 610130011028 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 610130011029 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 610130011030 putative active site [active] 610130011031 putative metal binding site [ion binding]; other site 610130011032 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130011033 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 610130011034 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 610130011035 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 610130011036 dimer interface [polypeptide binding]; other site 610130011037 anticodon binding site; other site 610130011038 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 610130011039 homodimer interface [polypeptide binding]; other site 610130011040 motif 1; other site 610130011041 active site 610130011042 motif 2; other site 610130011043 GAD domain; Region: GAD; pfam02938 610130011044 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 610130011045 active site 610130011046 motif 3; other site 610130011047 histidyl-tRNA synthetase; Region: hisS; TIGR00442 610130011048 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 610130011049 dimer interface [polypeptide binding]; other site 610130011050 motif 1; other site 610130011051 active site 610130011052 motif 2; other site 610130011053 motif 3; other site 610130011054 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 610130011055 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 610130011056 FeS/SAM binding site; other site 610130011057 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 610130011058 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 610130011059 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130011060 Zn2+ binding site [ion binding]; other site 610130011061 Mg2+ binding site [ion binding]; other site 610130011062 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 610130011063 synthetase active site [active] 610130011064 NTP binding site [chemical binding]; other site 610130011065 metal binding site [ion binding]; metal-binding site 610130011066 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 610130011067 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 610130011068 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 610130011069 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 610130011070 active site 610130011071 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 610130011072 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 610130011073 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 610130011074 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 610130011075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130011076 Coenzyme A binding pocket [chemical binding]; other site 610130011077 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 610130011078 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 610130011079 Coenzyme A binding pocket [chemical binding]; other site 610130011080 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130011081 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 610130011082 NAD binding site [chemical binding]; other site 610130011083 sugar binding site [chemical binding]; other site 610130011084 divalent metal binding site [ion binding]; other site 610130011085 tetramer (dimer of dimers) interface [polypeptide binding]; other site 610130011086 dimer interface [polypeptide binding]; other site 610130011087 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 610130011088 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 610130011089 nucleotide binding site [chemical binding]; other site 610130011090 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 610130011091 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130011092 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 610130011093 dimer interface [polypeptide binding]; other site 610130011094 conserved gate region; other site 610130011095 putative PBP binding loops; other site 610130011096 ABC-ATPase subunit interface; other site 610130011097 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 610130011098 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 610130011099 dimer interface [polypeptide binding]; other site 610130011100 conserved gate region; other site 610130011101 putative PBP binding loops; other site 610130011102 ABC-ATPase subunit interface; other site 610130011103 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130011104 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130011105 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 610130011106 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 610130011107 putative active site [active] 610130011108 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 610130011109 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 610130011110 generic binding surface II; other site 610130011111 generic binding surface I; other site 610130011112 YibE/F-like protein; Region: YibE_F; pfam07907 610130011113 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130011114 active site 610130011115 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 610130011116 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 610130011117 active site 610130011118 DNA binding site [nucleotide binding] 610130011119 Int/Topo IB signature motif; other site 610130011120 Integral membrane protein DUF95; Region: DUF95; cl00572 610130011121 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 610130011122 dimer interface [polypeptide binding]; other site 610130011123 ADP-ribose binding site [chemical binding]; other site 610130011124 active site 610130011125 nudix motif; other site 610130011126 metal binding site [ion binding]; metal-binding site 610130011127 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 610130011128 pyrroline-5-carboxylate reductase; Region: PLN02688 610130011129 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 610130011130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130011131 DNA-binding site [nucleotide binding]; DNA binding site 610130011132 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 610130011133 GntP family permease; Region: GntP_permease; pfam02447 610130011134 fructuronate transporter; Provisional; Region: PRK10034; cl15264 610130011135 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 610130011136 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 610130011137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 610130011138 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 610130011139 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 610130011140 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 610130011141 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 610130011142 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 610130011143 glutamine binding [chemical binding]; other site 610130011144 catalytic triad [active] 610130011145 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 610130011146 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 610130011147 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 610130011148 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 610130011149 active site 610130011150 ribulose/triose binding site [chemical binding]; other site 610130011151 phosphate binding site [ion binding]; other site 610130011152 substrate (anthranilate) binding pocket [chemical binding]; other site 610130011153 product (indole) binding pocket [chemical binding]; other site 610130011154 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 610130011155 active site 610130011156 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 610130011157 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 610130011158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130011159 catalytic residue [active] 610130011160 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 610130011161 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 610130011162 substrate binding site [chemical binding]; other site 610130011163 active site 610130011164 catalytic residues [active] 610130011165 heterodimer interface [polypeptide binding]; other site 610130011166 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 610130011167 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 610130011168 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 610130011169 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 610130011170 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 610130011171 substrate binding site [chemical binding]; other site 610130011172 multimerization interface [polypeptide binding]; other site 610130011173 ATP binding site [chemical binding]; other site 610130011174 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 610130011175 thiamine phosphate binding site [chemical binding]; other site 610130011176 active site 610130011177 pyrophosphate binding site [ion binding]; other site 610130011178 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 610130011179 substrate binding site [chemical binding]; other site 610130011180 dimer interface [polypeptide binding]; other site 610130011181 ATP binding site [chemical binding]; other site 610130011182 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 610130011183 active site 610130011184 methionine cluster; other site 610130011185 phosphorylation site [posttranslational modification] 610130011186 metal binding site [ion binding]; metal-binding site 610130011187 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 610130011188 active site 610130011189 P-loop; other site 610130011190 phosphorylation site [posttranslational modification] 610130011191 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 610130011192 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 610130011193 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 610130011194 beta-galactosidase; Region: BGL; TIGR03356 610130011195 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130011196 HTH domain; Region: HTH_11; pfam08279 610130011197 PRD domain; Region: PRD; pfam00874 610130011198 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 610130011199 active site 610130011200 P-loop; other site 610130011201 phosphorylation site [posttranslational modification] 610130011202 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 610130011203 active site 610130011204 phosphorylation site [posttranslational modification] 610130011205 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 610130011206 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 610130011207 heterodimer interface [polypeptide binding]; other site 610130011208 DNA binding site [nucleotide binding] 610130011209 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 610130011210 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 610130011211 active site 610130011212 DNA binding site [nucleotide binding] 610130011213 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 610130011214 DNA binding site [nucleotide binding] 610130011215 Sensory domain found in PocR; Region: PocR; pfam10114 610130011216 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 610130011217 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130011218 dimer interface [polypeptide binding]; other site 610130011219 putative CheW interface [polypeptide binding]; other site 610130011220 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 610130011221 UbiA prenyltransferase family; Region: UbiA; pfam01040 610130011222 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130011223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130011224 DNA-binding site [nucleotide binding]; DNA binding site 610130011225 UTRA domain; Region: UTRA; pfam07702 610130011226 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130011227 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 610130011228 substrate binding site [chemical binding]; other site 610130011229 ATP binding site [chemical binding]; other site 610130011230 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130011231 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 610130011232 dimer interface [polypeptide binding]; other site 610130011233 ABC-ATPase subunit interface; other site 610130011234 putative PBP binding loops; other site 610130011235 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 610130011236 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 610130011237 dimer interface [polypeptide binding]; other site 610130011238 conserved gate region; other site 610130011239 putative PBP binding loops; other site 610130011240 ABC-ATPase subunit interface; other site 610130011241 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130011242 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130011243 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130011244 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 610130011245 putative active site [active] 610130011246 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 610130011247 dimer interface [polypeptide binding]; other site 610130011248 active site 610130011249 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 610130011250 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 610130011251 putative active site [active] 610130011252 metal binding site [ion binding]; metal-binding site 610130011253 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 610130011254 Peptidase family M23; Region: Peptidase_M23; pfam01551 610130011255 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 610130011256 Uncharacterized conserved protein [Function unknown]; Region: COG4198 610130011257 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 610130011258 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 610130011259 putative ligand binding site [chemical binding]; other site 610130011260 putative NAD binding site [chemical binding]; other site 610130011261 putative catalytic site [active] 610130011262 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 610130011263 L-serine binding site [chemical binding]; other site 610130011264 ACT domain interface; other site 610130011265 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 610130011266 homodimer interface [polypeptide binding]; other site 610130011267 substrate-cofactor binding pocket; other site 610130011268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130011269 catalytic residue [active] 610130011270 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 610130011271 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 610130011272 PYR/PP interface [polypeptide binding]; other site 610130011273 dimer interface [polypeptide binding]; other site 610130011274 TPP binding site [chemical binding]; other site 610130011275 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 610130011276 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 610130011277 TPP-binding site [chemical binding]; other site 610130011278 dimer interface [polypeptide binding]; other site 610130011279 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 610130011280 6-phosphogluconate dehydratase; Region: edd; TIGR01196 610130011281 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 610130011282 tartrate dehydrogenase; Provisional; Region: PRK08194 610130011283 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 610130011284 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 610130011285 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 610130011286 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 610130011287 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130011288 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 610130011289 Walker A/P-loop; other site 610130011290 ATP binding site [chemical binding]; other site 610130011291 Q-loop/lid; other site 610130011292 ABC transporter signature motif; other site 610130011293 Walker B; other site 610130011294 D-loop; other site 610130011295 H-loop/switch region; other site 610130011296 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 610130011297 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 610130011298 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 610130011299 minor groove reading motif; other site 610130011300 helix-hairpin-helix signature motif; other site 610130011301 active site 610130011302 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 610130011303 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 610130011304 motif II; other site 610130011305 transcription elongation factor GreA; Region: greA; TIGR01462 610130011306 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 610130011307 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 610130011308 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 610130011309 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 610130011310 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 610130011311 Dimer interface [polypeptide binding]; other site 610130011312 anticodon binding site; other site 610130011313 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 610130011314 motif 1; other site 610130011315 dimer interface [polypeptide binding]; other site 610130011316 active site 610130011317 motif 2; other site 610130011318 motif 3; other site 610130011319 Predicted transcriptional regulator [Transcription]; Region: COG2378 610130011320 HTH domain; Region: HTH_11; pfam08279 610130011321 WYL domain; Region: WYL; pfam13280 610130011322 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 610130011323 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 610130011324 active site 610130011325 DNA binding site [nucleotide binding] 610130011326 Int/Topo IB signature motif; other site 610130011327 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 610130011328 active site 610130011329 DNA binding site [nucleotide binding] 610130011330 Int/Topo IB signature motif; other site 610130011331 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 610130011332 DNA binding residues [nucleotide binding] 610130011333 PemK-like protein; Region: PemK; pfam02452 610130011334 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130011335 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 610130011336 non-specific DNA binding site [nucleotide binding]; other site 610130011337 salt bridge; other site 610130011338 sequence-specific DNA binding site [nucleotide binding]; other site 610130011339 Domain of unknown function (DUF955); Region: DUF955; pfam06114 610130011340 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 610130011341 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 610130011342 non-specific DNA binding site [nucleotide binding]; other site 610130011343 salt bridge; other site 610130011344 sequence-specific DNA binding site [nucleotide binding]; other site 610130011345 Domain of unknown function (DUF955); Region: DUF955; pfam06114 610130011346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 610130011347 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 610130011348 active site 610130011349 NTP binding site [chemical binding]; other site 610130011350 metal binding triad [ion binding]; metal-binding site 610130011351 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 610130011352 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 610130011353 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 610130011354 TIGR02687 family protein; Region: TIGR02687 610130011355 PglZ domain; Region: PglZ; pfam08665 610130011356 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 610130011357 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 610130011358 Methyltransferase domain; Region: Methyltransf_26; pfam13659 610130011359 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 610130011360 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 610130011361 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 610130011362 Helix-turn-helix domain; Region: HTH_17; pfam12728 610130011363 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 610130011364 metal ion-dependent adhesion site (MIDAS); other site 610130011365 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...; Region: Macro_Appr_pase_like; cd02908 610130011366 putative ADP-ribose binding site [chemical binding]; other site 610130011367 putative active site [active] 610130011368 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 610130011369 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 610130011370 Methyltransferase domain; Region: Methyltransf_26; pfam13659 610130011371 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 610130011372 DEAD-like helicases superfamily; Region: DEXDc; smart00487 610130011373 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 610130011374 ATP binding site [chemical binding]; other site 610130011375 putative Mg++ binding site [ion binding]; other site 610130011376 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 610130011377 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 610130011378 YodL-like; Region: YodL; pfam14191 610130011379 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 610130011380 DNA topoisomerase III; Provisional; Region: PRK07726 610130011381 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 610130011382 active site 610130011383 putative interdomain interaction site [polypeptide binding]; other site 610130011384 putative metal-binding site [ion binding]; other site 610130011385 putative nucleotide binding site [chemical binding]; other site 610130011386 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 610130011387 domain I; other site 610130011388 DNA binding groove [nucleotide binding] 610130011389 phosphate binding site [ion binding]; other site 610130011390 domain II; other site 610130011391 domain III; other site 610130011392 nucleotide binding site [chemical binding]; other site 610130011393 catalytic site [active] 610130011394 domain IV; other site 610130011395 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130011396 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130011397 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130011398 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 610130011399 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130011400 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130011401 AAA-like domain; Region: AAA_10; pfam12846 610130011402 Domain of unknown function DUF87; Region: DUF87; pfam01935 610130011403 PrgI family protein; Region: PrgI; pfam12666 610130011404 Maff2 family; Region: Maff2; pfam12750 610130011405 Maff2 family; Region: Maff2; pfam12750 610130011406 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 610130011407 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 610130011408 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 610130011409 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 610130011410 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 610130011411 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 610130011412 ParB-like nuclease domain; Region: ParBc; pfam02195 610130011413 hypothetical protein; Validated; Region: PRK08116 610130011414 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 610130011415 Walker A motif; other site 610130011416 ATP binding site [chemical binding]; other site 610130011417 Walker B motif; other site 610130011418 BRO family, N-terminal domain; Region: Bro-N; smart01040 610130011419 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 610130011420 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 610130011421 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 610130011422 23S rRNA interface [nucleotide binding]; other site 610130011423 L3 interface [polypeptide binding]; other site 610130011424 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 610130011425 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 610130011426 dimerization interface 3.5A [polypeptide binding]; other site 610130011427 active site 610130011428 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 610130011429 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 610130011430 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 610130011431 Walker A/P-loop; other site 610130011432 ATP binding site [chemical binding]; other site 610130011433 Q-loop/lid; other site 610130011434 ABC transporter signature motif; other site 610130011435 Walker B; other site 610130011436 D-loop; other site 610130011437 H-loop/switch region; other site 610130011438 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 610130011439 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 610130011440 Walker A/P-loop; other site 610130011441 ATP binding site [chemical binding]; other site 610130011442 Q-loop/lid; other site 610130011443 ABC transporter signature motif; other site 610130011444 Walker B; other site 610130011445 D-loop; other site 610130011446 H-loop/switch region; other site 610130011447 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 610130011448 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 610130011449 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130011450 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 610130011451 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 610130011452 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 610130011453 alphaNTD homodimer interface [polypeptide binding]; other site 610130011454 alphaNTD - beta interaction site [polypeptide binding]; other site 610130011455 alphaNTD - beta' interaction site [polypeptide binding]; other site 610130011456 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 610130011457 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 610130011458 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 610130011459 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 610130011460 RNA binding surface [nucleotide binding]; other site 610130011461 30S ribosomal protein S11; Validated; Region: PRK05309 610130011462 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 610130011463 30S ribosomal protein S13; Region: bact_S13; TIGR03631 610130011464 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 610130011465 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 610130011466 rRNA binding site [nucleotide binding]; other site 610130011467 predicted 30S ribosome binding site; other site 610130011468 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 610130011469 RNA binding site [nucleotide binding]; other site 610130011470 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 610130011471 active site 610130011472 adenylate kinase; Reviewed; Region: adk; PRK00279 610130011473 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 610130011474 AMP-binding site [chemical binding]; other site 610130011475 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 610130011476 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 610130011477 SecY translocase; Region: SecY; pfam00344 610130011478 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 610130011479 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 610130011480 23S rRNA binding site [nucleotide binding]; other site 610130011481 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 610130011482 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 610130011483 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 610130011484 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 610130011485 5S rRNA interface [nucleotide binding]; other site 610130011486 L27 interface [polypeptide binding]; other site 610130011487 23S rRNA interface [nucleotide binding]; other site 610130011488 L5 interface [polypeptide binding]; other site 610130011489 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 610130011490 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 610130011491 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 610130011492 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 610130011493 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 610130011494 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 610130011495 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 610130011496 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 610130011497 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 610130011498 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 610130011499 RNA binding site [nucleotide binding]; other site 610130011500 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 610130011501 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 610130011502 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 610130011503 putative translocon interaction site; other site 610130011504 23S rRNA interface [nucleotide binding]; other site 610130011505 signal recognition particle (SRP54) interaction site; other site 610130011506 L23 interface [polypeptide binding]; other site 610130011507 trigger factor interaction site; other site 610130011508 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 610130011509 23S rRNA interface [nucleotide binding]; other site 610130011510 5S rRNA interface [nucleotide binding]; other site 610130011511 putative antibiotic binding site [chemical binding]; other site 610130011512 L25 interface [polypeptide binding]; other site 610130011513 L27 interface [polypeptide binding]; other site 610130011514 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 610130011515 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 610130011516 G-X-X-G motif; other site 610130011517 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 610130011518 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 610130011519 protein-rRNA interface [nucleotide binding]; other site 610130011520 putative translocon binding site; other site 610130011521 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 610130011522 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 610130011523 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 610130011524 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 610130011525 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 610130011526 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 610130011527 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 610130011528 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 610130011529 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130011530 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 610130011531 Acyltransferase family; Region: Acyl_transf_3; pfam01757 610130011532 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 610130011533 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 610130011534 catalytic triad [active] 610130011535 putative active site [active] 610130011536 Uncharacterized conserved protein [Function unknown]; Region: COG3589 610130011537 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 610130011538 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 610130011539 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 610130011540 active site turn [active] 610130011541 phosphorylation site [posttranslational modification] 610130011542 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 610130011543 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 610130011544 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 610130011545 putative active site [active] 610130011546 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 610130011547 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 610130011548 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 610130011549 putative active site [active] 610130011550 Sulfatase; Region: Sulfatase; pfam00884 610130011551 elongation factor Tu; Reviewed; Region: PRK00049 610130011552 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 610130011553 G1 box; other site 610130011554 GEF interaction site [polypeptide binding]; other site 610130011555 GTP/Mg2+ binding site [chemical binding]; other site 610130011556 Switch I region; other site 610130011557 G2 box; other site 610130011558 G3 box; other site 610130011559 Switch II region; other site 610130011560 G4 box; other site 610130011561 G5 box; other site 610130011562 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 610130011563 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 610130011564 Antibiotic Binding Site [chemical binding]; other site 610130011565 elongation factor G; Reviewed; Region: PRK00007 610130011566 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 610130011567 G1 box; other site 610130011568 putative GEF interaction site [polypeptide binding]; other site 610130011569 GTP/Mg2+ binding site [chemical binding]; other site 610130011570 Switch I region; other site 610130011571 G2 box; other site 610130011572 G3 box; other site 610130011573 Switch II region; other site 610130011574 G4 box; other site 610130011575 G5 box; other site 610130011576 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 610130011577 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 610130011578 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 610130011579 30S ribosomal protein S7; Validated; Region: PRK05302 610130011580 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 610130011581 S17 interaction site [polypeptide binding]; other site 610130011582 S8 interaction site; other site 610130011583 16S rRNA interaction site [nucleotide binding]; other site 610130011584 streptomycin interaction site [chemical binding]; other site 610130011585 23S rRNA interaction site [nucleotide binding]; other site 610130011586 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 610130011587 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 610130011588 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 610130011589 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 610130011590 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 610130011591 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 610130011592 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 610130011593 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 610130011594 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 610130011595 G-loop; other site 610130011596 DNA binding site [nucleotide binding] 610130011597 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 610130011598 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 610130011599 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 610130011600 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 610130011601 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 610130011602 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 610130011603 RPB1 interaction site [polypeptide binding]; other site 610130011604 RPB10 interaction site [polypeptide binding]; other site 610130011605 RPB11 interaction site [polypeptide binding]; other site 610130011606 RPB3 interaction site [polypeptide binding]; other site 610130011607 RPB12 interaction site [polypeptide binding]; other site 610130011608 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 610130011609 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 610130011610 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 610130011611 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130011612 Transcriptional regulators [Transcription]; Region: MarR; COG1846 610130011613 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 610130011614 non-specific DNA interactions [nucleotide binding]; other site 610130011615 DNA binding site [nucleotide binding] 610130011616 sequence specific DNA binding site [nucleotide binding]; other site 610130011617 putative cAMP binding site [chemical binding]; other site 610130011618 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 610130011619 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 610130011620 active site 610130011621 metal-binding site 610130011622 Phosphotransferase enzyme family; Region: APH; pfam01636 610130011623 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 610130011624 active site 610130011625 ATP binding site [chemical binding]; other site 610130011626 substrate binding site [chemical binding]; other site 610130011627 dimer interface [polypeptide binding]; other site 610130011628 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130011629 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 610130011630 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 610130011631 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 610130011632 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 610130011633 active site 610130011634 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 610130011635 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 610130011636 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 610130011637 Ligand binding site; other site 610130011638 Putative Catalytic site; other site 610130011639 DXD motif; other site 610130011640 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 610130011641 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 610130011642 dimer interface [polypeptide binding]; other site 610130011643 active site 610130011644 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 610130011645 hypothetical protein; Validated; Region: PRK06769 610130011646 active site 610130011647 motif I; other site 610130011648 motif II; other site 610130011649 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 610130011650 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 610130011651 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 610130011652 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 610130011653 Substrate binding site; other site 610130011654 Mg++ binding site; other site 610130011655 metal-binding site 610130011656 Mg++ binding site; other site 610130011657 metal-binding site 610130011658 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 610130011659 Acyltransferase family; Region: Acyl_transf_3; pfam01757 610130011660 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 610130011661 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 610130011662 Probable Catalytic site; other site 610130011663 metal-binding site 610130011664 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 610130011665 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 610130011666 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 610130011667 Methyltransferase domain; Region: Methyltransf_31; pfam13847 610130011668 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 610130011669 S-adenosylmethionine binding site [chemical binding]; other site 610130011670 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 610130011671 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 610130011672 Walker A/P-loop; other site 610130011673 ATP binding site [chemical binding]; other site 610130011674 Q-loop/lid; other site 610130011675 ABC transporter signature motif; other site 610130011676 Walker B; other site 610130011677 D-loop; other site 610130011678 H-loop/switch region; other site 610130011679 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 610130011680 putative carbohydrate binding site [chemical binding]; other site 610130011681 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 610130011682 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 610130011683 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 610130011684 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130011685 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 610130011686 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130011687 TM-ABC transporter signature motif; other site 610130011688 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 610130011689 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 610130011690 Walker A/P-loop; other site 610130011691 ATP binding site [chemical binding]; other site 610130011692 Q-loop/lid; other site 610130011693 ABC transporter signature motif; other site 610130011694 Walker B; other site 610130011695 D-loop; other site 610130011696 H-loop/switch region; other site 610130011697 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 610130011698 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 610130011699 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 610130011700 putative ligand binding site [chemical binding]; other site 610130011701 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130011702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130011703 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 610130011704 dimerization interface [polypeptide binding]; other site 610130011705 substrate binding pocket [chemical binding]; other site 610130011706 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 610130011707 Na2 binding site [ion binding]; other site 610130011708 putative substrate binding site 1 [chemical binding]; other site 610130011709 Na binding site 1 [ion binding]; other site 610130011710 putative substrate binding site 2 [chemical binding]; other site 610130011711 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 610130011712 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 610130011713 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130011714 catalytic residue [active] 610130011715 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 610130011716 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 610130011717 putative ligand binding site [chemical binding]; other site 610130011718 Response regulator receiver domain; Region: Response_reg; pfam00072 610130011719 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 610130011720 active site 610130011721 phosphorylation site [posttranslational modification] 610130011722 intermolecular recognition site; other site 610130011723 dimerization interface [polypeptide binding]; other site 610130011724 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130011725 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130011726 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130011727 CHASE3 domain; Region: CHASE3; cl05000 610130011728 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 610130011729 dimerization interface [polypeptide binding]; other site 610130011730 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 610130011731 Histidine kinase; Region: His_kinase; pfam06580 610130011732 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 610130011733 ATP binding site [chemical binding]; other site 610130011734 Mg2+ binding site [ion binding]; other site 610130011735 G-X-G motif; other site 610130011736 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 610130011737 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130011738 ligand binding site [chemical binding]; other site 610130011739 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 610130011740 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 610130011741 active site 610130011742 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 610130011743 Uncharacterized conserved protein (DUF2304); Region: DUF2304; pfam10066 610130011744 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 610130011745 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 610130011746 Ligand binding site; other site 610130011747 Putative Catalytic site; other site 610130011748 DXD motif; other site 610130011749 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 610130011750 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 610130011751 colanic acid exporter; Provisional; Region: PRK10459 610130011752 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 610130011753 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 610130011754 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 610130011755 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 610130011756 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 610130011757 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 610130011758 active site 610130011759 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 610130011760 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 610130011761 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 610130011762 D-cysteine desulfhydrase; Validated; Region: PRK03910 610130011763 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 610130011764 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 610130011765 catalytic residue [active] 610130011766 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 610130011767 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 610130011768 inhibitor-cofactor binding pocket; inhibition site 610130011769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 610130011770 catalytic residue [active] 610130011771 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 610130011772 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 610130011773 Probable Catalytic site; other site 610130011774 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 610130011775 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 610130011776 active site 610130011777 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 610130011778 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 610130011779 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 610130011780 Ligand binding site; other site 610130011781 metal-binding site 610130011782 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 610130011783 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130011784 UDP-galactopyranose mutase; Region: GLF; pfam03275 610130011785 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 610130011786 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 610130011787 TM-ABC transporter signature motif; other site 610130011788 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 610130011789 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130011790 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 610130011791 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 610130011792 Metal-binding active site; metal-binding site 610130011793 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130011794 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130011795 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 610130011796 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130011797 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130011798 DNA binding site [nucleotide binding] 610130011799 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 610130011800 2-isopropylmalate synthase; Validated; Region: PRK03739 610130011801 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 610130011802 active site 610130011803 catalytic residues [active] 610130011804 metal binding site [ion binding]; metal-binding site 610130011805 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 610130011806 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 610130011807 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 610130011808 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 610130011809 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 610130011810 active site 610130011811 substrate binding site [chemical binding]; other site 610130011812 metal binding site [ion binding]; metal-binding site 610130011813 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 610130011814 active site 610130011815 catalytic site [active] 610130011816 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 610130011817 Bacterial transcriptional activator domain; Region: BTAD; smart01043 610130011818 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 610130011819 binding surface 610130011820 TPR motif; other site 610130011821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130011822 metal binding site [ion binding]; metal-binding site 610130011823 active site 610130011824 I-site; other site 610130011825 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 610130011826 active site 610130011827 dimer interfaces [polypeptide binding]; other site 610130011828 catalytic residues [active] 610130011829 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 610130011830 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130011831 Zn2+ binding site [ion binding]; other site 610130011832 Mg2+ binding site [ion binding]; other site 610130011833 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 610130011834 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 610130011835 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 610130011836 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 610130011837 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 610130011838 beta-galactosidase; Region: BGL; TIGR03356 610130011839 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130011840 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 610130011841 dimer interface [polypeptide binding]; other site 610130011842 conserved gate region; other site 610130011843 putative PBP binding loops; other site 610130011844 ABC-ATPase subunit interface; other site 610130011845 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130011846 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 610130011847 dimer interface [polypeptide binding]; other site 610130011848 conserved gate region; other site 610130011849 putative PBP binding loops; other site 610130011850 ABC-ATPase subunit interface; other site 610130011851 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130011852 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130011853 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130011854 DNA binding site [nucleotide binding] 610130011855 domain linker motif; other site 610130011856 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 610130011857 dimerization interface [polypeptide binding]; other site 610130011858 ligand binding site [chemical binding]; other site 610130011859 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 610130011860 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 610130011861 catalytic domain interface [polypeptide binding]; other site 610130011862 homodimer interface [polypeptide binding]; other site 610130011863 putative active site [active] 610130011864 peroxiredoxin; Provisional; Region: PRK13189 610130011865 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 610130011866 dimer interface [polypeptide binding]; other site 610130011867 decamer (pentamer of dimers) interface [polypeptide binding]; other site 610130011868 catalytic triad [active] 610130011869 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 610130011870 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 610130011871 putative catalytic residues [active] 610130011872 catalytic nucleophile [active] 610130011873 Recombinase; Region: Recombinase; pfam07508 610130011874 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 610130011875 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 610130011876 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 610130011877 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 610130011878 AAA domain; Region: AAA_25; pfam13481 610130011879 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 610130011880 Walker A motif; other site 610130011881 ATP binding site [chemical binding]; other site 610130011882 Walker B motif; other site 610130011883 Protein of unknown function DUF262; Region: DUF262; pfam03235 610130011884 Uncharacterized conserved protein [Function unknown]; Region: COG1479 610130011885 Short C-terminal domain; Region: SHOCT; pfam09851 610130011886 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 610130011887 PAS domain S-box; Region: sensory_box; TIGR00229 610130011888 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130011889 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130011890 metal binding site [ion binding]; metal-binding site 610130011891 active site 610130011892 I-site; other site 610130011893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 610130011894 Integrase core domain; Region: rve; pfam00665 610130011895 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 610130011896 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 610130011897 dimerization interface [polypeptide binding]; other site 610130011898 PAS domain S-box; Region: sensory_box; TIGR00229 610130011899 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 610130011900 putative active site [active] 610130011901 heme pocket [chemical binding]; other site 610130011902 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130011903 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130011904 metal binding site [ion binding]; metal-binding site 610130011905 active site 610130011906 I-site; other site 610130011907 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 610130011908 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 610130011909 Zn2+ binding site [ion binding]; other site 610130011910 Mg2+ binding site [ion binding]; other site 610130011911 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130011912 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130011913 DNA binding site [nucleotide binding] 610130011914 domain linker motif; other site 610130011915 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 610130011916 ligand binding site [chemical binding]; other site 610130011917 dimerization interface [polypeptide binding]; other site 610130011918 4-alpha-glucanotransferase; Provisional; Region: PRK14508 610130011919 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130011920 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 610130011921 dimer interface [polypeptide binding]; other site 610130011922 conserved gate region; other site 610130011923 putative PBP binding loops; other site 610130011924 ABC-ATPase subunit interface; other site 610130011925 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 610130011926 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 610130011927 dimer interface [polypeptide binding]; other site 610130011928 conserved gate region; other site 610130011929 putative PBP binding loops; other site 610130011930 ABC-ATPase subunit interface; other site 610130011931 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130011932 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 610130011933 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 610130011934 Mechanosensitive ion channel; Region: MS_channel; pfam00924 610130011935 glycogen branching enzyme; Provisional; Region: PRK05402 610130011936 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 610130011937 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 610130011938 active site 610130011939 catalytic site [active] 610130011940 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 610130011941 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 610130011942 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 610130011943 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 610130011944 Catalytic site [active] 610130011945 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 610130011946 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 610130011947 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 610130011948 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 610130011949 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 610130011950 Tetramer interface [polypeptide binding]; other site 610130011951 active site 610130011952 FMN-binding site [chemical binding]; other site 610130011953 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 610130011954 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 610130011955 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 610130011956 non-specific DNA binding site [nucleotide binding]; other site 610130011957 salt bridge; other site 610130011958 sequence-specific DNA binding site [nucleotide binding]; other site 610130011959 Cupin domain; Region: Cupin_2; pfam07883 610130011960 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 610130011961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130011962 Walker A/P-loop; other site 610130011963 ATP binding site [chemical binding]; other site 610130011964 Q-loop/lid; other site 610130011965 ABC transporter signature motif; other site 610130011966 Walker B; other site 610130011967 D-loop; other site 610130011968 H-loop/switch region; other site 610130011969 TOBE domain; Region: TOBE_2; pfam08402 610130011970 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 610130011971 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 610130011972 putative PBP binding loops; other site 610130011973 dimer interface [polypeptide binding]; other site 610130011974 ABC-ATPase subunit interface; other site 610130011975 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 610130011976 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 610130011977 dimer interface [polypeptide binding]; other site 610130011978 conserved gate region; other site 610130011979 putative PBP binding loops; other site 610130011980 ABC-ATPase subunit interface; other site 610130011981 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 610130011982 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 610130011983 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 610130011984 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 610130011985 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 610130011986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130011987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130011988 metal binding site [ion binding]; metal-binding site 610130011989 active site 610130011990 I-site; other site 610130011991 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 610130011992 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 610130011993 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 610130011994 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 610130011995 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 610130011996 integron integrase; Region: integrase_gron; TIGR02249 610130011997 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 610130011998 Int/Topo IB signature motif; other site 610130011999 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 610130012000 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130012001 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130012002 metal binding site [ion binding]; metal-binding site 610130012003 active site 610130012004 I-site; other site 610130012005 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 610130012006 metal binding site [ion binding]; metal-binding site 610130012007 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 610130012008 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 610130012009 FeS/SAM binding site; other site 610130012010 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 610130012011 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 610130012012 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 610130012013 active site 610130012014 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130012015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130012016 metal binding site [ion binding]; metal-binding site 610130012017 active site 610130012018 I-site; other site 610130012019 HAMP domain; Region: HAMP; pfam00672 610130012020 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130012021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130012022 dimer interface [polypeptide binding]; other site 610130012023 putative CheW interface [polypeptide binding]; other site 610130012024 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 610130012025 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130012026 dimer interface [polypeptide binding]; other site 610130012027 putative CheW interface [polypeptide binding]; other site 610130012028 CHASE domain; Region: CHASE; cl01369 610130012029 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 610130012030 putative active site [active] 610130012031 PAS fold; Region: PAS_3; pfam08447 610130012032 heme pocket [chemical binding]; other site 610130012033 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130012034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130012035 metal binding site [ion binding]; metal-binding site 610130012036 active site 610130012037 I-site; other site 610130012038 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 610130012039 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 610130012040 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 610130012041 DNA binding residues [nucleotide binding] 610130012042 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 610130012043 Part of AAA domain; Region: AAA_19; pfam13245 610130012044 Family description; Region: UvrD_C_2; pfam13538 610130012045 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 610130012046 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 610130012047 ATP binding site [chemical binding]; other site 610130012048 Mg++ binding site [ion binding]; other site 610130012049 motif III; other site 610130012050 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 610130012051 nucleotide binding region [chemical binding]; other site 610130012052 ATP-binding site [chemical binding]; other site 610130012053 Predicted membrane protein [Function unknown]; Region: COG2323 610130012054 Predicted membrane protein [Function unknown]; Region: COG2323 610130012055 acetyl esterase; Provisional; Region: PRK10162 610130012056 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 610130012057 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130012058 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130012059 DNA binding site [nucleotide binding] 610130012060 domain linker motif; other site 610130012061 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 610130012062 ligand binding site [chemical binding]; other site 610130012063 dimerization interface [polypeptide binding]; other site 610130012064 D-galactonate transporter; Region: 2A0114; TIGR00893 610130012065 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 610130012066 putative substrate translocation pore; other site 610130012067 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 610130012068 Na binding site [ion binding]; other site 610130012069 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 610130012070 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 610130012071 FAD binding site [chemical binding]; other site 610130012072 homotetramer interface [polypeptide binding]; other site 610130012073 substrate binding pocket [chemical binding]; other site 610130012074 catalytic base [active] 610130012075 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 610130012076 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 610130012077 active site 610130012078 enoyl-CoA hydratase; Provisional; Region: PRK06494 610130012079 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 610130012080 substrate binding site [chemical binding]; other site 610130012081 oxyanion hole (OAH) forming residues; other site 610130012082 trimer interface [polypeptide binding]; other site 610130012083 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130012084 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 610130012085 CoA-transferase family III; Region: CoA_transf_3; pfam02515 610130012086 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 610130012087 CoA-transferase family III; Region: CoA_transf_3; pfam02515 610130012088 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 610130012089 Ligand binding site [chemical binding]; other site 610130012090 Electron transfer flavoprotein domain; Region: ETF; pfam01012 610130012091 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 610130012092 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 610130012093 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 610130012094 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 610130012095 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 610130012096 acyl-activating enzyme (AAE) consensus motif; other site 610130012097 putative AMP binding site [chemical binding]; other site 610130012098 putative active site [active] 610130012099 putative CoA binding site [chemical binding]; other site 610130012100 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 610130012101 Ligand binding site [chemical binding]; other site 610130012102 Electron transfer flavoprotein domain; Region: ETF; pfam01012 610130012103 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 610130012104 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 610130012105 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 610130012106 myosin-cross-reactive antigen; Provisional; Region: PRK13977 610130012107 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 610130012108 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130012109 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 610130012110 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; cl17426 610130012111 NADP+ binding site [chemical binding]; other site 610130012112 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 610130012113 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 610130012114 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 610130012115 S-adenosylmethionine binding site [chemical binding]; other site 610130012116 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 610130012117 DEAD-like helicases superfamily; Region: DEXDc; smart00487 610130012118 ATP binding site [chemical binding]; other site 610130012119 Mg++ binding site [ion binding]; other site 610130012120 motif III; other site 610130012121 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 610130012122 nucleotide binding region [chemical binding]; other site 610130012123 ATP-binding site [chemical binding]; other site 610130012124 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 610130012125 RNA binding site [nucleotide binding]; other site 610130012126 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 610130012127 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 610130012128 dimer interface [polypeptide binding]; other site 610130012129 conserved gate region; other site 610130012130 ABC-ATPase subunit interface; other site 610130012131 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 610130012132 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 610130012133 dimer interface [polypeptide binding]; other site 610130012134 conserved gate region; other site 610130012135 putative PBP binding loops; other site 610130012136 ABC-ATPase subunit interface; other site 610130012137 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 610130012138 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 610130012139 substrate binding pocket [chemical binding]; other site 610130012140 membrane-bound complex binding site; other site 610130012141 hinge residues; other site 610130012142 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 610130012143 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 610130012144 Walker A/P-loop; other site 610130012145 ATP binding site [chemical binding]; other site 610130012146 Q-loop/lid; other site 610130012147 ABC transporter signature motif; other site 610130012148 Walker B; other site 610130012149 D-loop; other site 610130012150 H-loop/switch region; other site 610130012151 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 610130012152 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130012153 Walker A/P-loop; other site 610130012154 ATP binding site [chemical binding]; other site 610130012155 Q-loop/lid; other site 610130012156 ABC transporter signature motif; other site 610130012157 Walker B; other site 610130012158 D-loop; other site 610130012159 H-loop/switch region; other site 610130012160 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 610130012161 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 610130012162 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 610130012163 Walker A/P-loop; other site 610130012164 ATP binding site [chemical binding]; other site 610130012165 Q-loop/lid; other site 610130012166 ABC transporter signature motif; other site 610130012167 Walker B; other site 610130012168 D-loop; other site 610130012169 H-loop/switch region; other site 610130012170 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 610130012171 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 610130012172 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 610130012173 dimer interface [polypeptide binding]; other site 610130012174 conserved gate region; other site 610130012175 putative PBP binding loops; other site 610130012176 ABC-ATPase subunit interface; other site 610130012177 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 610130012178 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 610130012179 dimer interface [polypeptide binding]; other site 610130012180 conserved gate region; other site 610130012181 putative PBP binding loops; other site 610130012182 ABC-ATPase subunit interface; other site 610130012183 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 610130012184 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 610130012185 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 610130012186 MgtC family; Region: MgtC; pfam02308 610130012187 KduI/IolB family; Region: KduI; pfam04962 610130012188 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 610130012189 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 610130012190 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 610130012191 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 610130012192 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 610130012193 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 610130012194 PYR/PP interface [polypeptide binding]; other site 610130012195 dimer interface [polypeptide binding]; other site 610130012196 TPP binding site [chemical binding]; other site 610130012197 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 610130012198 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 610130012199 TPP-binding site [chemical binding]; other site 610130012200 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130012201 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 610130012202 substrate binding site [chemical binding]; other site 610130012203 ATP binding site [chemical binding]; other site 610130012204 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 610130012205 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 610130012206 tetrameric interface [polypeptide binding]; other site 610130012207 NAD binding site [chemical binding]; other site 610130012208 catalytic residues [active] 610130012209 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 610130012210 intersubunit interface [polypeptide binding]; other site 610130012211 active site 610130012212 zinc binding site [ion binding]; other site 610130012213 Na+ binding site [ion binding]; other site 610130012214 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 610130012215 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 610130012216 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 610130012217 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 610130012218 Beta-lactamase; Region: Beta-lactamase; pfam00144 610130012219 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130012220 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 610130012221 active site 610130012222 phosphorylation site [posttranslational modification] 610130012223 intermolecular recognition site; other site 610130012224 dimerization interface [polypeptide binding]; other site 610130012225 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 610130012226 DNA binding site [nucleotide binding] 610130012227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130012228 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 610130012229 dimerization interface [polypeptide binding]; other site 610130012230 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 610130012231 dimer interface [polypeptide binding]; other site 610130012232 phosphorylation site [posttranslational modification] 610130012233 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 610130012234 ATP binding site [chemical binding]; other site 610130012235 Mg2+ binding site [ion binding]; other site 610130012236 G-X-G motif; other site 610130012237 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 610130012238 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 610130012239 putative NAD(P) binding site [chemical binding]; other site 610130012240 catalytic Zn binding site [ion binding]; other site 610130012241 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 610130012242 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 610130012243 putative substrate binding site [chemical binding]; other site 610130012244 putative ATP binding site [chemical binding]; other site 610130012245 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 610130012246 active site 610130012247 phosphorylation site [posttranslational modification] 610130012248 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130012249 HTH domain; Region: HTH_11; pfam08279 610130012250 PRD domain; Region: PRD; pfam00874 610130012251 PRD domain; Region: PRD; pfam00874 610130012252 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 610130012253 active site 610130012254 P-loop; other site 610130012255 phosphorylation site [posttranslational modification] 610130012256 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; cl00163 610130012257 active site 610130012258 phosphorylation site [posttranslational modification] 610130012259 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 610130012260 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 610130012261 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 610130012262 active site 610130012263 P-loop; other site 610130012264 phosphorylation site [posttranslational modification] 610130012265 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 610130012266 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 610130012267 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 610130012268 active site 610130012269 P-loop; other site 610130012270 phosphorylation site [posttranslational modification] 610130012271 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 610130012272 S-adenosylmethionine synthetase; Validated; Region: PRK05250 610130012273 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 610130012274 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 610130012275 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 610130012276 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 610130012277 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130012278 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 610130012279 dimer interface [polypeptide binding]; other site 610130012280 conserved gate region; other site 610130012281 putative PBP binding loops; other site 610130012282 ABC-ATPase subunit interface; other site 610130012283 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130012284 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 610130012285 dimer interface [polypeptide binding]; other site 610130012286 conserved gate region; other site 610130012287 putative PBP binding loops; other site 610130012288 ABC-ATPase subunit interface; other site 610130012289 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130012290 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130012291 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130012292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130012293 UDP-glucose 4-epimerase; Region: PLN02240 610130012294 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 610130012295 NAD binding site [chemical binding]; other site 610130012296 homodimer interface [polypeptide binding]; other site 610130012297 active site 610130012298 substrate binding site [chemical binding]; other site 610130012299 Phosphotransferase enzyme family; Region: APH; pfam01636 610130012300 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 610130012301 substrate binding site [chemical binding]; other site 610130012302 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 610130012303 active site 610130012304 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 610130012305 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130012306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130012307 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 610130012308 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 610130012309 hinge; other site 610130012310 active site 610130012311 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 610130012312 active site 610130012313 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 610130012314 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 610130012315 gamma subunit interface [polypeptide binding]; other site 610130012316 epsilon subunit interface [polypeptide binding]; other site 610130012317 LBP interface [polypeptide binding]; other site 610130012318 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 610130012319 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 610130012320 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 610130012321 alpha subunit interaction interface [polypeptide binding]; other site 610130012322 Walker A motif; other site 610130012323 ATP binding site [chemical binding]; other site 610130012324 Walker B motif; other site 610130012325 inhibitor binding site; inhibition site 610130012326 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 610130012327 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 610130012328 core domain interface [polypeptide binding]; other site 610130012329 delta subunit interface [polypeptide binding]; other site 610130012330 epsilon subunit interface [polypeptide binding]; other site 610130012331 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 610130012332 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 610130012333 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 610130012334 beta subunit interaction interface [polypeptide binding]; other site 610130012335 Walker A motif; other site 610130012336 ATP binding site [chemical binding]; other site 610130012337 Walker B motif; other site 610130012338 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 610130012339 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 610130012340 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 610130012341 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 610130012342 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 610130012343 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 610130012344 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 610130012345 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 610130012346 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 610130012347 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130012348 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 610130012349 Hexamer interface [polypeptide binding]; other site 610130012350 Putative hexagonal pore residue; other site 610130012351 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 610130012352 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130012353 Propanediol utilisation protein PduL; Region: PduL; pfam06130 610130012354 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 610130012355 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 610130012356 putative catalytic cysteine [active] 610130012357 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130012358 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 610130012359 Hexamer interface [polypeptide binding]; other site 610130012360 Hexagonal pore residue; other site 610130012361 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 610130012362 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 610130012363 Hexamer/Pentamer interface [polypeptide binding]; other site 610130012364 central pore; other site 610130012365 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 610130012366 Hexamer interface [polypeptide binding]; other site 610130012367 Hexagonal pore residue; other site 610130012368 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 610130012369 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 610130012370 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 610130012371 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 610130012372 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 610130012373 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 610130012374 putative active site [active] 610130012375 metal binding site [ion binding]; metal-binding site 610130012376 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 610130012377 G1 box; other site 610130012378 GTP/Mg2+ binding site [chemical binding]; other site 610130012379 G2 box; other site 610130012380 Switch I region; other site 610130012381 G3 box; other site 610130012382 Switch II region; other site 610130012383 G5 box; other site 610130012384 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 610130012385 putative hexamer interface [polypeptide binding]; other site 610130012386 putative hexagonal pore; other site 610130012387 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 610130012388 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 610130012389 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 610130012390 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 610130012391 dimer interface [polypeptide binding]; other site 610130012392 active site 610130012393 glycine loop; other site 610130012394 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 610130012395 putative catalytic cysteine [active] 610130012396 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130012397 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 610130012398 Hexamer interface [polypeptide binding]; other site 610130012399 Hexagonal pore residue; other site 610130012400 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130012401 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 610130012402 Hexamer interface [polypeptide binding]; other site 610130012403 Hexagonal pore residue; other site 610130012404 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 610130012405 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 610130012406 EamA-like transporter family; Region: EamA; cl17759 610130012407 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 610130012408 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 610130012409 Hexamer interface [polypeptide binding]; other site 610130012410 Putative hexagonal pore residue; other site 610130012411 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 610130012412 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 610130012413 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 610130012414 DNA binding residues [nucleotide binding] 610130012415 drug binding residues [chemical binding]; other site 610130012416 dimer interface [polypeptide binding]; other site 610130012417 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 610130012418 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 610130012419 catalytic residues [active] 610130012420 Predicted membrane protein [Function unknown]; Region: COG1511 610130012421 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 610130012422 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 610130012423 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 610130012424 intersubunit interface [polypeptide binding]; other site 610130012425 active site 610130012426 catalytic residue [active] 610130012427 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130012428 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 610130012429 dimer interface [polypeptide binding]; other site 610130012430 active site 610130012431 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 610130012432 dimer interface [polypeptide binding]; other site 610130012433 active site 610130012434 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; cd00001 610130012435 active site 610130012436 phosphorylation site [posttranslational modification] 610130012437 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 610130012438 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 610130012439 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130012440 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 610130012441 putative active site [active] 610130012442 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 610130012443 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130012444 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 610130012445 substrate binding site [chemical binding]; other site 610130012446 ATP binding site [chemical binding]; other site 610130012447 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130012448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130012449 DNA-binding site [nucleotide binding]; DNA binding site 610130012450 UTRA domain; Region: UTRA; pfam07702 610130012451 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 610130012452 active pocket/dimerization site; other site 610130012453 active site 610130012454 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 610130012455 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 610130012456 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 610130012457 motif II; other site 610130012458 Protein of unknown function DUF262; Region: DUF262; pfam03235 610130012459 Protein of unknown function DUF262; Region: DUF262; pfam03235 610130012460 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 610130012461 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 610130012462 Walker A motif; other site 610130012463 ATP binding site [chemical binding]; other site 610130012464 Walker B motif; other site 610130012465 Helix-turn-helix domain; Region: HTH_17; cl17695 610130012466 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 610130012467 active site 610130012468 DNA binding site [nucleotide binding] 610130012469 Int/Topo IB signature motif; other site 610130012470 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 610130012471 active site residue [active] 610130012472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 610130012473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 610130012474 metal binding site [ion binding]; metal-binding site 610130012475 active site 610130012476 I-site; other site 610130012477 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 610130012478 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 610130012479 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130012480 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 610130012481 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 610130012482 non-heme iron binding site [ion binding]; other site 610130012483 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130012484 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130012485 DNA-binding site [nucleotide binding]; DNA binding site 610130012486 UTRA domain; Region: UTRA; pfam07702 610130012487 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 610130012488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130012489 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130012490 DNA-binding site [nucleotide binding]; DNA binding site 610130012491 UTRA domain; Region: UTRA; pfam07702 610130012492 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 610130012493 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 610130012494 dimerization interface [polypeptide binding]; other site 610130012495 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130012496 dimer interface [polypeptide binding]; other site 610130012497 putative CheW interface [polypeptide binding]; other site 610130012498 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 610130012499 homodimer interface [polypeptide binding]; other site 610130012500 maltodextrin glucosidase; Provisional; Region: PRK10785 610130012501 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 610130012502 active site 610130012503 homodimer interface [polypeptide binding]; other site 610130012504 catalytic site [active] 610130012505 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 610130012506 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 610130012507 Walker A motif; other site 610130012508 ATP binding site [chemical binding]; other site 610130012509 Walker B motif; other site 610130012510 arginine finger; other site 610130012511 Peptidase family M41; Region: Peptidase_M41; pfam01434 610130012512 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130012513 active site 610130012514 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 610130012515 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 610130012516 Ligand Binding Site [chemical binding]; other site 610130012517 TilS substrate C-terminal domain; Region: TilS_C; smart00977 610130012518 stage II sporulation protein E; Region: spore_II_E; TIGR02865 610130012519 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 610130012520 Septum formation initiator; Region: DivIC; cl17659 610130012521 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 610130012522 YabP family; Region: YabP; cl06766 610130012523 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 610130012524 RNA binding surface [nucleotide binding]; other site 610130012525 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 610130012526 IHF dimer interface [polypeptide binding]; other site 610130012527 IHF - DNA interface [nucleotide binding]; other site 610130012528 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 610130012529 homodimer interface [polypeptide binding]; other site 610130012530 metal binding site [ion binding]; metal-binding site 610130012531 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130012532 stage V sporulation protein T; Region: spore_V_T; TIGR02851 610130012533 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 610130012534 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 610130012535 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 610130012536 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 610130012537 ATP binding site [chemical binding]; other site 610130012538 putative Mg++ binding site [ion binding]; other site 610130012539 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 610130012540 nucleotide binding region [chemical binding]; other site 610130012541 ATP-binding site [chemical binding]; other site 610130012542 TRCF domain; Region: TRCF; pfam03461 610130012543 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 610130012544 putative active site [active] 610130012545 catalytic residue [active] 610130012546 Helix-turn-helix domain; Region: HTH_28; pfam13518 610130012547 Winged helix-turn helix; Region: HTH_29; pfam13551 610130012548 Homeodomain-like domain; Region: HTH_32; pfam13565 610130012549 Integrase core domain; Region: rve; pfam00665 610130012550 Integrase core domain; Region: rve_3; pfam13683 610130012551 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 610130012552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130012553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130012554 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130012555 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130012556 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 610130012557 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 610130012558 dimer interface [polypeptide binding]; other site 610130012559 conserved gate region; other site 610130012560 putative PBP binding loops; other site 610130012561 ABC-ATPase subunit interface; other site 610130012562 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130012563 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 610130012564 dimer interface [polypeptide binding]; other site 610130012565 conserved gate region; other site 610130012566 putative PBP binding loops; other site 610130012567 ABC-ATPase subunit interface; other site 610130012568 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 610130012569 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 610130012570 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 610130012571 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 610130012572 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 610130012573 active site 610130012574 motif I; other site 610130012575 motif II; other site 610130012576 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 610130012577 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 610130012578 active site 610130012579 trigger factor; Provisional; Region: tig; PRK01490 610130012580 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 610130012581 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 610130012582 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 610130012583 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 610130012584 oligomer interface [polypeptide binding]; other site 610130012585 putative active site [active] 610130012586 metal binding site [ion binding]; metal-binding site 610130012587 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 610130012588 putative active site [active] 610130012589 dimerization interface [polypeptide binding]; other site 610130012590 putative tRNAtyr binding site [nucleotide binding]; other site 610130012591 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 610130012592 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 610130012593 active site 610130012594 catalytic site [active] 610130012595 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 610130012596 synthetase active site [active] 610130012597 NTP binding site [chemical binding]; other site 610130012598 metal binding site [ion binding]; metal-binding site 610130012599 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 610130012600 RNA binding site [nucleotide binding]; other site 610130012601 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 610130012602 RNA binding site [nucleotide binding]; other site 610130012603 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...; Region: S1_RPS1_repeat_hs4; cd05692 610130012604 RNA binding site [nucleotide binding]; other site 610130012605 putative hydrolase; Validated; Region: PRK09248 610130012606 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 610130012607 active site 610130012608 Transcriptional regulator [Transcription]; Region: LysR; COG0583 610130012609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 610130012610 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 610130012611 dimerization interface [polypeptide binding]; other site 610130012612 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 610130012613 metal binding site 2 [ion binding]; metal-binding site 610130012614 putative DNA binding helix; other site 610130012615 metal binding site 1 [ion binding]; metal-binding site 610130012616 dimer interface [polypeptide binding]; other site 610130012617 structural Zn2+ binding site [ion binding]; other site 610130012618 Rubredoxin [Energy production and conversion]; Region: COG1773 610130012619 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 610130012620 iron binding site [ion binding]; other site 610130012621 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 610130012622 Rubrerythrin [Energy production and conversion]; Region: COG1592 610130012623 diiron binding motif [ion binding]; other site 610130012624 Rubrerythrin [Energy production and conversion]; Region: COG1592 610130012625 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 610130012626 binuclear metal center [ion binding]; other site 610130012627 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 610130012628 iron binding site [ion binding]; other site 610130012629 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 610130012630 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 610130012631 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 610130012632 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 610130012633 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 610130012634 active site 610130012635 catalytic site [active] 610130012636 metal binding site [ion binding]; metal-binding site 610130012637 dimer interface [polypeptide binding]; other site 610130012638 Protein of unknown function (DUF1667); Region: DUF1667; cl17602 610130012639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 610130012640 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 610130012641 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130012642 Predicted dehydrogenase [General function prediction only]; Region: COG0579 610130012643 hydroxyglutarate oxidase; Provisional; Region: PRK11728 610130012644 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 610130012645 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 610130012646 MgtC family; Region: MgtC; pfam02308 610130012647 glycerol kinase; Provisional; Region: glpK; PRK00047 610130012648 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 610130012649 N- and C-terminal domain interface [polypeptide binding]; other site 610130012650 active site 610130012651 MgATP binding site [chemical binding]; other site 610130012652 catalytic site [active] 610130012653 metal binding site [ion binding]; metal-binding site 610130012654 glycerol binding site [chemical binding]; other site 610130012655 homotetramer interface [polypeptide binding]; other site 610130012656 homodimer interface [polypeptide binding]; other site 610130012657 FBP binding site [chemical binding]; other site 610130012658 protein IIAGlc interface [polypeptide binding]; other site 610130012659 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 610130012660 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 610130012661 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 610130012662 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 610130012663 Soluble P-type ATPase [General function prediction only]; Region: COG4087 610130012664 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 610130012665 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 610130012666 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 610130012667 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 610130012668 active site 610130012669 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 610130012670 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 610130012671 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130012672 DNA-binding site [nucleotide binding]; DNA binding site 610130012673 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130012674 UTRA domain; Region: UTRA; pfam07702 610130012675 S-ribosylhomocysteinase; Provisional; Region: PRK02260 610130012676 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130012677 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 610130012678 active site 610130012679 phosphorylation site [posttranslational modification] 610130012680 intermolecular recognition site; other site 610130012681 dimerization interface [polypeptide binding]; other site 610130012682 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 610130012683 DNA binding site [nucleotide binding] 610130012684 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 610130012685 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 610130012686 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 610130012687 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 610130012688 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 610130012689 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 610130012690 PYR/PP interface [polypeptide binding]; other site 610130012691 dimer interface [polypeptide binding]; other site 610130012692 TPP binding site [chemical binding]; other site 610130012693 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 610130012694 transketolase; Reviewed; Region: PRK05899 610130012695 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 610130012696 TPP-binding site [chemical binding]; other site 610130012697 dimer interface [polypeptide binding]; other site 610130012698 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 610130012699 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 610130012700 active site 610130012701 P-loop; other site 610130012702 phosphorylation site [posttranslational modification] 610130012703 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 610130012704 PRD domain; Region: PRD; pfam00874 610130012705 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 610130012706 active site 610130012707 P-loop; other site 610130012708 phosphorylation site [posttranslational modification] 610130012709 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 610130012710 active site 610130012711 phosphorylation site [posttranslational modification] 610130012712 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 610130012713 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme; Region: E_set_GDE_N; cd11234 610130012714 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 610130012715 active site 610130012716 catalytic site [active] 610130012717 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 610130012718 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 610130012719 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130012720 ABC transporter; Region: ABC_tran_2; pfam12848 610130012721 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130012722 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 610130012723 active site 610130012724 putative catalytic site [active] 610130012725 DNA binding site [nucleotide binding] 610130012726 putative phosphate binding site [ion binding]; other site 610130012727 metal binding site A [ion binding]; metal-binding site 610130012728 AP binding site [nucleotide binding]; other site 610130012729 metal binding site B [ion binding]; metal-binding site 610130012730 cobalt transport protein CbiN; Provisional; Region: PRK02898 610130012731 cobalt transport protein CbiM; Validated; Region: PRK08319 610130012732 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 610130012733 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 610130012734 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 610130012735 Walker A/P-loop; other site 610130012736 ATP binding site [chemical binding]; other site 610130012737 Q-loop/lid; other site 610130012738 ABC transporter signature motif; other site 610130012739 Walker B; other site 610130012740 D-loop; other site 610130012741 H-loop/switch region; other site 610130012742 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 610130012743 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 610130012744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130012745 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130012746 ABC transporter; Region: ABC_tran_2; pfam12848 610130012747 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 610130012748 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 610130012749 pentamer interface [polypeptide binding]; other site 610130012750 dodecaamer interface [polypeptide binding]; other site 610130012751 TspO/MBR family; Region: TspO_MBR; pfam03073 610130012752 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 610130012753 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 610130012754 Walker A/P-loop; other site 610130012755 ATP binding site [chemical binding]; other site 610130012756 Q-loop/lid; other site 610130012757 ABC transporter signature motif; other site 610130012758 Walker B; other site 610130012759 D-loop; other site 610130012760 H-loop/switch region; other site 610130012761 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 610130012762 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 610130012763 dimer interface [polypeptide binding]; other site 610130012764 conserved gate region; other site 610130012765 putative PBP binding loops; other site 610130012766 ABC-ATPase subunit interface; other site 610130012767 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 610130012768 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 610130012769 substrate binding pocket [chemical binding]; other site 610130012770 membrane-bound complex binding site; other site 610130012771 hinge residues; other site 610130012772 dihydroorotase; Validated; Region: pyrC; PRK09357 610130012773 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 610130012774 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 610130012775 active site 610130012776 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 610130012777 Uncharacterized conserved protein [Function unknown]; Region: COG2966 610130012778 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 610130012779 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 610130012780 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 610130012781 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; cd02062 610130012782 FMN binding site [chemical binding]; other site 610130012783 dimer interface [polypeptide binding]; other site 610130012784 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 610130012785 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 610130012786 Uncharacterized conserved protein [Function unknown]; Region: COG2155 610130012787 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 610130012788 AAA domain; Region: AAA_22; pfam13401 610130012789 Walker A motif; other site 610130012790 ATP binding site [chemical binding]; other site 610130012791 Walker B motif; other site 610130012792 arginine finger; other site 610130012793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 610130012794 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 610130012795 metal ion-dependent adhesion site (MIDAS); other site 610130012796 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 610130012797 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130012798 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 610130012799 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 610130012800 active site 610130012801 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 610130012802 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130012803 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 610130012804 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 610130012805 active site 610130012806 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130012807 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 610130012808 active site 610130012809 phosphorylation site [posttranslational modification] 610130012810 intermolecular recognition site; other site 610130012811 dimerization interface [polypeptide binding]; other site 610130012812 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 610130012813 DNA binding site [nucleotide binding] 610130012814 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130012815 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 610130012816 dimer interface [polypeptide binding]; other site 610130012817 phosphorylation site [posttranslational modification] 610130012818 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 610130012819 ATP binding site [chemical binding]; other site 610130012820 Mg2+ binding site [ion binding]; other site 610130012821 G-X-G motif; other site 610130012822 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130012823 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 610130012824 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 610130012825 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 610130012826 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 610130012827 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 610130012828 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 610130012829 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 610130012830 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 610130012831 NlpC/P60 family; Region: NLPC_P60; pfam00877 610130012832 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 610130012833 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 610130012834 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 610130012835 gamma subunit interface [polypeptide binding]; other site 610130012836 epsilon subunit interface [polypeptide binding]; other site 610130012837 LBP interface [polypeptide binding]; other site 610130012838 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 610130012839 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 610130012840 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 610130012841 alpha subunit interaction interface [polypeptide binding]; other site 610130012842 Walker A motif; other site 610130012843 ATP binding site [chemical binding]; other site 610130012844 Walker B motif; other site 610130012845 inhibitor binding site; inhibition site 610130012846 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 610130012847 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 610130012848 core domain interface [polypeptide binding]; other site 610130012849 delta subunit interface [polypeptide binding]; other site 610130012850 epsilon subunit interface [polypeptide binding]; other site 610130012851 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 610130012852 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 610130012853 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 610130012854 beta subunit interaction interface [polypeptide binding]; other site 610130012855 Walker A motif; other site 610130012856 ATP binding site [chemical binding]; other site 610130012857 Walker B motif; other site 610130012858 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 610130012859 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 610130012860 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 610130012861 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 610130012862 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 610130012863 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 610130012864 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 610130012865 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 610130012866 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 610130012867 PGAP1-like protein; Region: PGAP1; pfam07819 610130012868 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 610130012869 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 610130012870 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 610130012871 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 610130012872 ABC-ATPase subunit interface; other site 610130012873 dimer interface [polypeptide binding]; other site 610130012874 putative PBP binding regions; other site 610130012875 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 610130012876 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 610130012877 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 610130012878 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 610130012879 metal binding site [ion binding]; metal-binding site 610130012880 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 610130012881 metal binding site 2 [ion binding]; metal-binding site 610130012882 putative DNA binding helix; other site 610130012883 metal binding site 1 [ion binding]; metal-binding site 610130012884 dimer interface [polypeptide binding]; other site 610130012885 structural Zn2+ binding site [ion binding]; other site 610130012886 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 610130012887 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 610130012888 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 610130012889 Walker A motif; other site 610130012890 ATP binding site [chemical binding]; other site 610130012891 Walker B motif; other site 610130012892 arginine finger; other site 610130012893 Transcriptional antiterminator [Transcription]; Region: COG3933 610130012894 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 610130012895 active pocket/dimerization site; other site 610130012896 active site 610130012897 phosphorylation site [posttranslational modification] 610130012898 PRD domain; Region: PRD; pfam00874 610130012899 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130012900 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 610130012901 putative active site [active] 610130012902 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 610130012903 dimer interface [polypeptide binding]; other site 610130012904 active site 610130012905 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 610130012906 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 610130012907 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 610130012908 active site 610130012909 phosphorylation site [posttranslational modification] 610130012910 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 610130012911 active pocket/dimerization site; other site 610130012912 active site 610130012913 phosphorylation site [posttranslational modification] 610130012914 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 610130012915 S-adenosylmethionine binding site [chemical binding]; other site 610130012916 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 610130012917 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 610130012918 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 610130012919 Bacterial SH3 domain; Region: SH3_3; pfam08239 610130012920 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 610130012921 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 610130012922 V-type ATP synthase subunit I; Validated; Region: PRK05771 610130012923 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; pfam01990 610130012924 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 610130012925 V-type ATP synthase subunit A; Provisional; Region: PRK04192 610130012926 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 610130012927 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 610130012928 Walker A motif/ATP binding site; other site 610130012929 Walker B motif; other site 610130012930 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 610130012931 V-type ATP synthase subunit B; Provisional; Region: PRK04196 610130012932 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 610130012933 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 610130012934 Walker A motif homologous position; other site 610130012935 Walker B motif; other site 610130012936 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 610130012937 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 610130012938 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 610130012939 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 610130012940 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 610130012941 DNA binding residues [nucleotide binding] 610130012942 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 610130012943 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 610130012944 AP (apurinic/apyrimidinic) site pocket; other site 610130012945 DNA interaction; other site 610130012946 Metal-binding active site; metal-binding site 610130012947 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 610130012948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130012949 Walker A/P-loop; other site 610130012950 ATP binding site [chemical binding]; other site 610130012951 Q-loop/lid; other site 610130012952 ABC transporter signature motif; other site 610130012953 Walker B; other site 610130012954 D-loop; other site 610130012955 H-loop/switch region; other site 610130012956 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 610130012957 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 610130012958 dimer interface [polypeptide binding]; other site 610130012959 conserved gate region; other site 610130012960 putative PBP binding loops; other site 610130012961 ABC-ATPase subunit interface; other site 610130012962 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 610130012963 dimer interface [polypeptide binding]; other site 610130012964 conserved gate region; other site 610130012965 putative PBP binding loops; other site 610130012966 ABC-ATPase subunit interface; other site 610130012967 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130012968 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 610130012969 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 610130012970 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 610130012971 NAD(P) binding site [chemical binding]; other site 610130012972 LDH/MDH dimer interface [polypeptide binding]; other site 610130012973 substrate binding site [chemical binding]; other site 610130012974 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 610130012975 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 610130012976 substrate binding site [chemical binding]; other site 610130012977 ATP binding site [chemical binding]; other site 610130012978 Transcriptional regulators [Transcription]; Region: PurR; COG1609 610130012979 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 610130012980 DNA binding site [nucleotide binding] 610130012981 domain linker motif; other site 610130012982 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 610130012983 dimerization interface [polypeptide binding]; other site 610130012984 ligand binding site [chemical binding]; other site 610130012985 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 610130012986 Melibiase; Region: Melibiase; pfam02065 610130012987 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130012988 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 610130012989 dimer interface [polypeptide binding]; other site 610130012990 conserved gate region; other site 610130012991 putative PBP binding loops; other site 610130012992 ABC-ATPase subunit interface; other site 610130012993 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 610130012994 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 610130012995 dimer interface [polypeptide binding]; other site 610130012996 conserved gate region; other site 610130012997 putative PBP binding loops; other site 610130012998 ABC-ATPase subunit interface; other site 610130012999 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130013000 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 610130013001 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 610130013002 dimerization interface [polypeptide binding]; other site 610130013003 Histidine kinase; Region: His_kinase; pfam06580 610130013004 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 610130013005 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 610130013006 active site 610130013007 phosphorylation site [posttranslational modification] 610130013008 intermolecular recognition site; other site 610130013009 dimerization interface [polypeptide binding]; other site 610130013010 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130013011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130013012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130013013 phosphoenolpyruvate synthase; Validated; Region: PRK06241 610130013014 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 610130013015 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 610130013016 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 610130013017 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 610130013018 Walker A/P-loop; other site 610130013019 ATP binding site [chemical binding]; other site 610130013020 Q-loop/lid; other site 610130013021 ABC transporter signature motif; other site 610130013022 Walker B; other site 610130013023 D-loop; other site 610130013024 H-loop/switch region; other site 610130013025 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 610130013026 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 610130013027 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 610130013028 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 610130013029 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 610130013030 Na binding site [ion binding]; other site 610130013031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 610130013032 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 610130013033 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 610130013034 dimer interface [polypeptide binding]; other site 610130013035 Citrate synthase; Region: Citrate_synt; pfam00285 610130013036 active site 610130013037 citrylCoA binding site [chemical binding]; other site 610130013038 oxalacetate/citrate binding site [chemical binding]; other site 610130013039 coenzyme A binding site [chemical binding]; other site 610130013040 catalytic triad [active] 610130013041 Predicted membrane protein [Function unknown]; Region: COG2860 610130013042 UPF0126 domain; Region: UPF0126; pfam03458 610130013043 UPF0126 domain; Region: UPF0126; pfam03458 610130013044 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 610130013045 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 610130013046 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 610130013047 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 610130013048 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 610130013049 dimer interface [polypeptide binding]; other site 610130013050 phosphorylation site [posttranslational modification] 610130013051 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 610130013052 ATP binding site [chemical binding]; other site 610130013053 Mg2+ binding site [ion binding]; other site 610130013054 G-X-G motif; other site 610130013055 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 610130013056 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 610130013057 active site 610130013058 phosphorylation site [posttranslational modification] 610130013059 intermolecular recognition site; other site 610130013060 dimerization interface [polypeptide binding]; other site 610130013061 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 610130013062 DNA binding site [nucleotide binding] 610130013063 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 610130013064 active site 610130013065 catalytic site [active] 610130013066 substrate binding site [chemical binding]; other site 610130013067 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 610130013068 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 610130013069 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 610130013070 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 610130013071 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 610130013072 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 610130013073 dimer interface [polypeptide binding]; other site 610130013074 conserved gate region; other site 610130013075 putative PBP binding loops; other site 610130013076 ABC-ATPase subunit interface; other site 610130013077 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 610130013078 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 610130013079 dimer interface [polypeptide binding]; other site 610130013080 conserved gate region; other site 610130013081 putative PBP binding loops; other site 610130013082 ABC-ATPase subunit interface; other site 610130013083 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 610130013084 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 610130013085 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 610130013086 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 610130013087 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 610130013088 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 610130013089 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 610130013090 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 610130013091 HAMP domain; Region: HAMP; pfam00672 610130013092 dimerization interface [polypeptide binding]; other site 610130013093 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130013094 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 610130013095 dimer interface [polypeptide binding]; other site 610130013096 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 610130013097 putative CheW interface [polypeptide binding]; other site 610130013098 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 610130013099 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 610130013100 TAP-like protein; Region: Abhydrolase_4; pfam08386 610130013101 AAA domain; Region: AAA_21; pfam13304 610130013102 AAA domain; Region: AAA_21; pfam13304 610130013103 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 610130013104 trimer interface [polypeptide binding]; other site 610130013105 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 610130013106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 610130013107 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 610130013108 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 610130013109 substrate binding pocket [chemical binding]; other site 610130013110 chain length determination region; other site 610130013111 substrate-Mg2+ binding site; other site 610130013112 catalytic residues [active] 610130013113 aspartate-rich region 1; other site 610130013114 active site lid residues [active] 610130013115 aspartate-rich region 2; other site 610130013116 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 610130013117 ApbE family; Region: ApbE; pfam02424 610130013118 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 610130013119 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 610130013120 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 610130013121 UbiA prenyltransferase family; Region: UbiA; pfam01040 610130013122 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 610130013123 Flavoprotein; Region: Flavoprotein; pfam02441 610130013124 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 610130013125 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 610130013126 substrate binding pocket [chemical binding]; other site 610130013127 membrane-bound complex binding site; other site 610130013128 hinge residues; other site 610130013129 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 610130013130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130013131 Walker A/P-loop; other site 610130013132 ATP binding site [chemical binding]; other site 610130013133 Q-loop/lid; other site 610130013134 ABC transporter signature motif; other site 610130013135 Walker B; other site 610130013136 D-loop; other site 610130013137 H-loop/switch region; other site 610130013138 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 610130013139 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 610130013140 putative PBP binding loops; other site 610130013141 dimer interface [polypeptide binding]; other site 610130013142 ABC-ATPase subunit interface; other site 610130013143 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 610130013144 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 610130013145 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 610130013146 Predicted transcriptional regulators [Transcription]; Region: COG1733 610130013147 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 610130013148 dimerization interface [polypeptide binding]; other site 610130013149 putative DNA binding site [nucleotide binding]; other site 610130013150 putative Zn2+ binding site [ion binding]; other site 610130013151 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 610130013152 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 610130013153 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 610130013154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 610130013155 Walker A/P-loop; other site 610130013156 ATP binding site [chemical binding]; other site 610130013157 Q-loop/lid; other site 610130013158 ABC transporter signature motif; other site 610130013159 Walker B; other site 610130013160 D-loop; other site 610130013161 H-loop/switch region; other site 610130013162 TOBE domain; Region: TOBE_2; pfam08402 610130013163 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 610130013164 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 610130013165 dimer interface [polypeptide binding]; other site 610130013166 conserved gate region; other site 610130013167 putative PBP binding loops; other site 610130013168 ABC-ATPase subunit interface; other site 610130013169 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 610130013170 dimer interface [polypeptide binding]; other site 610130013171 conserved gate region; other site 610130013172 ABC-ATPase subunit interface; other site 610130013173 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 610130013174 Histidine kinase; Region: His_kinase; pfam06580 610130013175 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 610130013176 ATP binding site [chemical binding]; other site 610130013177 Mg2+ binding site [ion binding]; other site 610130013178 G-X-G motif; other site 610130013179 Response regulator receiver domain; Region: Response_reg; pfam00072 610130013180 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 610130013181 active site 610130013182 phosphorylation site [posttranslational modification] 610130013183 intermolecular recognition site; other site 610130013184 dimerization interface [polypeptide binding]; other site 610130013185 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 610130013186 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 610130013187 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 610130013188 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 610130013189 motif II; other site 610130013190 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 610130013191 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 610130013192 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 610130013193 active site 610130013194 phosphorylation site [posttranslational modification] 610130013195 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 610130013196 active pocket/dimerization site; other site 610130013197 active site 610130013198 phosphorylation site [posttranslational modification] 610130013199 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 610130013200 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 610130013201 putative active site [active] 610130013202 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 610130013203 dimer interface [polypeptide binding]; other site 610130013204 active site 610130013205 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130013206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130013207 DNA-binding site [nucleotide binding]; DNA binding site 610130013208 UTRA domain; Region: UTRA; pfam07702 610130013209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 610130013210 DNA-binding site [nucleotide binding]; DNA binding site 610130013211 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 610130013212 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 610130013213 glutamate dehydrogenase; Provisional; Region: PRK09414 610130013214 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 610130013215 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 610130013216 NAD(P) binding site [chemical binding]; other site 610130013217 Cna protein B-type domain; Region: Cna_B; pfam05738 610130013218 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 610130013219 domain interaction interfaces [polypeptide binding]; other site 610130013220 Cna protein B-type domain; Region: Cna_B; pfam05738 610130013221 Cna protein B-type domain; Region: Cna_B; pfam05738 610130013222 Cna protein B-type domain; Region: Cna_B; pfam05738 610130013223 Cna protein B-type domain; Region: Cna_B; pfam05738 610130013224 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 610130013225 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 610130013226 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 610130013227 putative NADH binding site [chemical binding]; other site 610130013228 putative active site [active] 610130013229 nudix motif; other site 610130013230 putative metal binding site [ion binding]; other site 610130013231 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 610130013232 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 610130013233 putative catalytic cysteine [active] 610130013234 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 610130013235 putative active site [active] 610130013236 metal binding site [ion binding]; metal-binding site 610130013237 pantothenate kinase; Provisional; Region: PRK13317 610130013238 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 610130013239 ParB-like nuclease domain; Region: ParB; smart00470 610130013240 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 610130013241 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 610130013242 P-loop; other site 610130013243 Magnesium ion binding site [ion binding]; other site 610130013244 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 610130013245 Magnesium ion binding site [ion binding]; other site 610130013246 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 610130013247 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 610130013248 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 610130013249 S-adenosylmethionine binding site [chemical binding]; other site 610130013250 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 610130013251 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 610130013252 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 610130013253 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 610130013254 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 610130013255 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 610130013256 trmE is a tRNA modification GTPase; Region: trmE; cd04164 610130013257 G1 box; other site 610130013258 GTP/Mg2+ binding site [chemical binding]; other site 610130013259 Switch I region; other site 610130013260 G2 box; other site 610130013261 Switch II region; other site 610130013262 G3 box; other site 610130013263 G4 box; other site 610130013264 G5 box; other site 610130013265 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 610130013266 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 610130013267 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 610130013268 G-X-X-G motif; other site 610130013269 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 610130013270 RxxxH motif; other site 610130013271 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 610130013272 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 610130013273 Haemolytic domain; Region: Haemolytic; pfam01809 610130013274 ribonuclease P; Reviewed; Region: rnpA; PRK00499 610130013275 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 610130013276 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 610130013277 Predicted membrane protein [Function unknown]; Region: COG4684