-- dump date 20140620_080128 -- class Genbank::misc_feature -- table misc_feature_note -- id note 984892000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 984892000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 984892000003 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 984892000004 Walker A motif; other site 984892000005 ATP binding site [chemical binding]; other site 984892000006 Walker B motif; other site 984892000007 arginine finger; other site 984892000008 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 984892000009 DnaA box-binding interface [nucleotide binding]; other site 984892000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 984892000011 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 984892000012 putative DNA binding surface [nucleotide binding]; other site 984892000013 dimer interface [polypeptide binding]; other site 984892000014 beta-clamp/clamp loader binding surface; other site 984892000015 beta-clamp/translesion DNA polymerase binding surface; other site 984892000016 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 984892000017 Thioredoxin; Region: Thioredoxin_4; pfam13462 984892000018 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 984892000019 recombination protein F; Reviewed; Region: recF; PRK00064 984892000020 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 984892000021 Walker A/P-loop; other site 984892000022 ATP binding site [chemical binding]; other site 984892000023 Q-loop/lid; other site 984892000024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892000025 ABC transporter signature motif; other site 984892000026 Walker B; other site 984892000027 D-loop; other site 984892000028 H-loop/switch region; other site 984892000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 984892000030 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 984892000031 Mg2+ binding site [ion binding]; other site 984892000032 G-X-G motif; other site 984892000033 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 984892000034 anchoring element; other site 984892000035 dimer interface [polypeptide binding]; other site 984892000036 ATP binding site [chemical binding]; other site 984892000037 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 984892000038 active site 984892000039 putative metal-binding site [ion binding]; other site 984892000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 984892000041 DNA gyrase subunit A; Validated; Region: PRK05560 984892000042 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 984892000043 CAP-like domain; other site 984892000044 active site 984892000045 primary dimer interface [polypeptide binding]; other site 984892000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892000052 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 984892000053 putative substrate binding site [chemical binding]; other site 984892000054 putative ATP binding site [chemical binding]; other site 984892000055 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 984892000056 active sites [active] 984892000057 tetramer interface [polypeptide binding]; other site 984892000058 seryl-tRNA synthetase; Provisional; Region: PRK05431 984892000059 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 984892000060 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 984892000061 dimer interface [polypeptide binding]; other site 984892000062 active site 984892000063 motif 1; other site 984892000064 motif 2; other site 984892000065 motif 3; other site 984892000066 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 984892000067 Predicted membrane protein [Function unknown]; Region: COG4392 984892000068 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 984892000069 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 984892000070 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 984892000071 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 984892000072 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 984892000073 DHH family; Region: DHH; pfam01368 984892000074 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 984892000075 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 984892000076 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 984892000077 replicative DNA helicase; Region: DnaB; TIGR00665 984892000078 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 984892000079 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 984892000080 Walker A motif; other site 984892000081 ATP binding site [chemical binding]; other site 984892000082 Walker B motif; other site 984892000083 DNA binding loops [nucleotide binding] 984892000084 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 984892000085 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 984892000086 GDP-binding site [chemical binding]; other site 984892000087 ACT binding site; other site 984892000088 IMP binding site; other site 984892000089 Uncharacterized conserved protein [Function unknown]; Region: COG1284 984892000090 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 984892000091 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 984892000092 SdpI/YhfL protein family; Region: SdpI; pfam13630 984892000093 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892000094 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 984892000095 active site 984892000096 phosphorylation site [posttranslational modification] 984892000097 intermolecular recognition site; other site 984892000098 dimerization interface [polypeptide binding]; other site 984892000099 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 984892000100 DNA binding site [nucleotide binding] 984892000101 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 984892000102 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 984892000103 dimerization interface [polypeptide binding]; other site 984892000104 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 984892000105 putative active site [active] 984892000106 heme pocket [chemical binding]; other site 984892000107 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 984892000108 dimer interface [polypeptide binding]; other site 984892000109 phosphorylation site [posttranslational modification] 984892000110 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 984892000111 ATP binding site [chemical binding]; other site 984892000112 Mg2+ binding site [ion binding]; other site 984892000113 G-X-G motif; other site 984892000114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 984892000115 YycH protein; Region: YycH; pfam07435 984892000116 YycH protein; Region: YycI; cl02015 984892000117 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 984892000118 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 984892000119 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984892000120 Predicted membrane protein [Function unknown]; Region: COG2311 984892000121 Protein of unknown function (DUF418); Region: DUF418; cl12135 984892000122 Protein of unknown function (DUF418); Region: DUF418; pfam04235 984892000123 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 984892000124 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 984892000125 hexamer interface [polypeptide binding]; other site 984892000126 ligand binding site [chemical binding]; other site 984892000127 putative active site [active] 984892000128 NAD(P) binding site [chemical binding]; other site 984892000129 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 984892000130 tetramer interface [polypeptide binding]; other site 984892000131 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 984892000132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892000133 catalytic residue [active] 984892000134 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 984892000135 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 984892000136 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 984892000137 Soluble P-type ATPase [General function prediction only]; Region: COG4087 984892000138 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 984892000139 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 984892000140 non-specific DNA binding site [nucleotide binding]; other site 984892000141 salt bridge; other site 984892000142 sequence-specific DNA binding site [nucleotide binding]; other site 984892000143 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 984892000144 non-specific DNA binding site [nucleotide binding]; other site 984892000145 salt bridge; other site 984892000146 sequence-specific DNA binding site [nucleotide binding]; other site 984892000147 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 984892000148 B domain; Region: B; pfam02216 984892000149 B domain; Region: B; pfam02216 984892000150 B domain; Region: B; pfam02216 984892000151 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892000152 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 984892000153 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 984892000154 B domain; Region: B; pfam02216 984892000155 B domain; Region: B; pfam02216 984892000156 B domain; Region: B; pfam02216 984892000157 B domain; Region: B; pfam02216 984892000158 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892000159 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 984892000160 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892000161 DNA-binding site [nucleotide binding]; DNA binding site 984892000162 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 984892000163 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 984892000164 beta-galactosidase; Region: BGL; TIGR03356 984892000165 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 984892000166 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 984892000167 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 984892000168 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 984892000169 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 984892000170 DNA binding residues [nucleotide binding] 984892000171 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 984892000172 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 984892000173 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 984892000174 potential catalytic triad [active] 984892000175 conserved cys residue [active] 984892000176 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 984892000177 NADH(P)-binding; Region: NAD_binding_10; pfam13460 984892000178 NAD(P) binding site [chemical binding]; other site 984892000179 putative active site [active] 984892000180 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 984892000181 Prostaglandin dehydrogenases; Region: PGDH; cd05288 984892000182 NAD(P) binding site [chemical binding]; other site 984892000183 substrate binding site [chemical binding]; other site 984892000184 dimer interface [polypeptide binding]; other site 984892000185 Predicted membrane protein [Function unknown]; Region: COG4270 984892000186 Fic family protein [Function unknown]; Region: COG3177 984892000187 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 984892000188 Fic/DOC family; Region: Fic; pfam02661 984892000189 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 984892000190 putative DNA binding site [nucleotide binding]; other site 984892000191 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 984892000192 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 984892000193 metal binding site [ion binding]; metal-binding site 984892000194 dimer interface [polypeptide binding]; other site 984892000195 methionine sulfoxide reductase A; Provisional; Region: PRK05528 984892000196 NAD-dependent deacetylase; Provisional; Region: PRK00481 984892000197 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 984892000198 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 984892000199 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 984892000200 ligand binding site [chemical binding]; other site 984892000201 flexible hinge region; other site 984892000202 carbamate kinase; Reviewed; Region: PRK12686 984892000203 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 984892000204 putative substrate binding site [chemical binding]; other site 984892000205 nucleotide binding site [chemical binding]; other site 984892000206 nucleotide binding site [chemical binding]; other site 984892000207 homodimer interface [polypeptide binding]; other site 984892000208 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 984892000209 Spore germination protein; Region: Spore_permease; cl17796 984892000210 ornithine carbamoyltransferase; Validated; Region: PRK02102 984892000211 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 984892000212 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 984892000213 arginine deiminase; Provisional; Region: PRK01388 984892000214 Arginine repressor [Transcription]; Region: ArgR; COG1438 984892000215 Winged helix-turn helix; Region: HTH_33; pfam13592 984892000216 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 984892000217 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 984892000218 Tic20-like protein; Region: Tic20; pfam09685 984892000219 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 984892000220 amidase catalytic site [active] 984892000221 Zn binding residues [ion binding]; other site 984892000222 substrate binding site [chemical binding]; other site 984892000223 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 984892000224 Predicted flavoprotein [General function prediction only]; Region: COG0431 984892000225 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 984892000226 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 984892000227 Rib/alpha-like repeat; Region: Rib; cl07159 984892000228 Rib/alpha-like repeat; Region: Rib; cl07159 984892000229 Rib/alpha-like repeat; Region: Rib; cl07159 984892000230 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 984892000231 Predicted membrane protein [Function unknown]; Region: COG2311 984892000232 Protein of unknown function (DUF418); Region: DUF418; cl12135 984892000233 Protein of unknown function (DUF418); Region: DUF418; pfam04235 984892000234 FemAB family; Region: FemAB; pfam02388 984892000235 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 984892000236 Transcriptional regulators [Transcription]; Region: PurR; COG1609 984892000237 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 984892000238 DNA binding site [nucleotide binding] 984892000239 domain linker motif; other site 984892000240 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 984892000241 dimerization interface [polypeptide binding]; other site 984892000242 ligand binding site [chemical binding]; other site 984892000243 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 984892000244 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 984892000245 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 984892000246 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 984892000247 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 984892000248 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 984892000249 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 984892000250 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 984892000251 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 984892000252 Ca binding site [ion binding]; other site 984892000253 active site 984892000254 catalytic site [active] 984892000255 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 984892000256 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 984892000257 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 984892000258 dimer interface [polypeptide binding]; other site 984892000259 conserved gate region; other site 984892000260 putative PBP binding loops; other site 984892000261 ABC-ATPase subunit interface; other site 984892000262 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 984892000263 dimer interface [polypeptide binding]; other site 984892000264 conserved gate region; other site 984892000265 putative PBP binding loops; other site 984892000266 ABC-ATPase subunit interface; other site 984892000267 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 984892000268 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 984892000269 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 984892000270 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 984892000271 Walker A/P-loop; other site 984892000272 ATP binding site [chemical binding]; other site 984892000273 Q-loop/lid; other site 984892000274 ABC transporter signature motif; other site 984892000275 Walker B; other site 984892000276 D-loop; other site 984892000277 H-loop/switch region; other site 984892000278 TOBE domain; Region: TOBE; pfam03459 984892000279 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 984892000280 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 984892000281 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 984892000282 TrkA-C domain; Region: TrkA_C; pfam02080 984892000283 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 984892000284 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984892000285 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 984892000286 Zn binding site [ion binding]; other site 984892000287 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 984892000288 Zn binding site [ion binding]; other site 984892000289 H+ Antiporter protein; Region: 2A0121; TIGR00900 984892000290 potential frameshift: common BLAST hit: gi|384548234|ref|YP_005737487.1| drug/metabolite transporter permease 984892000291 EamA-like transporter family; Region: EamA; pfam00892 984892000292 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 984892000293 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 984892000294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892000295 Walker A/P-loop; other site 984892000296 ATP binding site [chemical binding]; other site 984892000297 Q-loop/lid; other site 984892000298 ABC transporter signature motif; other site 984892000299 Walker B; other site 984892000300 D-loop; other site 984892000301 H-loop/switch region; other site 984892000302 CAAX protease self-immunity; Region: Abi; pfam02517 984892000303 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 984892000304 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 984892000305 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 984892000306 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892000307 DNA-binding site [nucleotide binding]; DNA binding site 984892000308 UTRA domain; Region: UTRA; pfam07702 984892000309 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 984892000310 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 984892000311 dimer interface [polypeptide binding]; other site 984892000312 active site 984892000313 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 984892000314 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 984892000315 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 984892000316 putative substrate binding site [chemical binding]; other site 984892000317 putative ATP binding site [chemical binding]; other site 984892000318 Class I aldolases; Region: Aldolase_Class_I; cl17187 984892000319 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 984892000320 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 984892000321 active site 984892000322 phosphorylation site [posttranslational modification] 984892000323 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 984892000324 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 984892000325 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 984892000326 active pocket/dimerization site; other site 984892000327 active site 984892000328 phosphorylation site [posttranslational modification] 984892000329 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 984892000330 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 984892000331 active site 984892000332 dimer interface [polypeptide binding]; other site 984892000333 Uncharacterized conserved protein [Function unknown]; Region: COG2353 984892000334 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 984892000335 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 984892000336 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 984892000337 active site turn [active] 984892000338 phosphorylation site [posttranslational modification] 984892000339 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 984892000340 HPr interaction site; other site 984892000341 glycerol kinase (GK) interaction site [polypeptide binding]; other site 984892000342 active site 984892000343 phosphorylation site [posttranslational modification] 984892000344 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 984892000345 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 984892000346 NAD(P) binding site [chemical binding]; other site 984892000347 LDH/MDH dimer interface [polypeptide binding]; other site 984892000348 substrate binding site [chemical binding]; other site 984892000349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 984892000350 Transcriptional regulator [Transcription]; Region: IclR; COG1414 984892000351 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 984892000352 putative DNA binding site [nucleotide binding]; other site 984892000353 putative Zn2+ binding site [ion binding]; other site 984892000354 Bacterial transcriptional regulator; Region: IclR; pfam01614 984892000355 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 984892000356 non-specific DNA binding site [nucleotide binding]; other site 984892000357 salt bridge; other site 984892000358 sequence-specific DNA binding site [nucleotide binding]; other site 984892000359 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 984892000360 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 984892000361 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 984892000362 catalytic Zn binding site [ion binding]; other site 984892000363 structural Zn binding site [ion binding]; other site 984892000364 NAD(P) binding site [chemical binding]; other site 984892000365 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 984892000366 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 984892000367 non-specific DNA binding site [nucleotide binding]; other site 984892000368 salt bridge; other site 984892000369 sequence-specific DNA binding site [nucleotide binding]; other site 984892000370 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 984892000371 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 984892000372 L-lactate permease; Region: Lactate_perm; cl00701 984892000373 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 984892000374 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 984892000375 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 984892000376 inhibitor-cofactor binding pocket; inhibition site 984892000377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892000378 catalytic residue [active] 984892000379 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 984892000380 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 984892000381 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892000382 catalytic residue [active] 984892000383 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 984892000384 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 984892000385 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 984892000386 active site 984892000387 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 984892000388 Acyltransferase family; Region: Acyl_transf_3; pfam01757 984892000389 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 984892000390 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 984892000391 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 984892000392 DXD motif; other site 984892000393 Predicted transcriptional regulator [Transcription]; Region: COG2378 984892000394 HTH domain; Region: HTH_11; cl17392 984892000395 WYL domain; Region: WYL; pfam13280 984892000396 Predicted membrane protein [Function unknown]; Region: COG2259 984892000397 azoreductase; Reviewed; Region: PRK00170 984892000398 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 984892000399 CAAX protease self-immunity; Region: Abi; pfam02517 984892000400 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 984892000401 AsnC family; Region: AsnC_trans_reg; pfam01037 984892000402 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 984892000403 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892000404 catalytic residue [active] 984892000405 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 984892000406 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 984892000407 putative dimer interface [polypeptide binding]; other site 984892000408 metal-dependent hydrolase; Provisional; Region: PRK13291 984892000409 DinB superfamily; Region: DinB_2; pfam12867 984892000410 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 984892000411 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 984892000412 tetramer interface [polypeptide binding]; other site 984892000413 heme binding pocket [chemical binding]; other site 984892000414 NADPH binding site [chemical binding]; other site 984892000415 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 984892000416 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 984892000417 dimerization interface [polypeptide binding]; other site 984892000418 DPS ferroxidase diiron center [ion binding]; other site 984892000419 ion pore; other site 984892000420 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 984892000421 Na binding site [ion binding]; other site 984892000422 aminotransferase A; Validated; Region: PRK07683 984892000423 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 984892000424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892000425 homodimer interface [polypeptide binding]; other site 984892000426 catalytic residue [active] 984892000427 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 984892000428 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 984892000429 nucleotide binding site [chemical binding]; other site 984892000430 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 984892000431 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 984892000432 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 984892000433 Nucleoside recognition; Region: Gate; pfam07670 984892000434 Nucleoside recognition; Region: Gate; pfam07670 984892000435 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984892000436 FtsX-like permease family; Region: FtsX; pfam02687 984892000437 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984892000438 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984892000439 Walker A/P-loop; other site 984892000440 ATP binding site [chemical binding]; other site 984892000441 Q-loop/lid; other site 984892000442 ABC transporter signature motif; other site 984892000443 Walker B; other site 984892000444 D-loop; other site 984892000445 H-loop/switch region; other site 984892000446 Transcriptional regulator; Region: Rrf2; pfam02082 984892000447 Rrf2 family protein; Region: rrf2_super; TIGR00738 984892000448 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 984892000449 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 984892000450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892000451 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984892000452 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892000453 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892000454 putative active site [active] 984892000455 putative NTP binding site [chemical binding]; other site 984892000456 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 984892000457 nucleic acid binding site [nucleotide binding]; other site 984892000458 putative nucleic acid binding site [nucleotide binding]; other site 984892000459 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892000460 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 984892000461 Phospholipid methyltransferase; Region: PEMT; cl17370 984892000462 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 984892000463 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 984892000464 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 984892000465 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 984892000466 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 984892000467 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 984892000468 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 984892000469 SecY translocase; Region: SecY; pfam00344 984892000470 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 984892000471 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 984892000472 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 984892000473 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 984892000474 DEAD/DEAH box helicase; Region: DEAD; pfam00270 984892000475 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 984892000476 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 984892000477 nucleotide binding region [chemical binding]; other site 984892000478 ATP-binding site [chemical binding]; other site 984892000479 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 984892000480 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 984892000481 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 984892000482 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 984892000483 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 984892000484 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 984892000485 dimer interface [polypeptide binding]; other site 984892000486 active site 984892000487 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 984892000488 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 984892000489 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984892000490 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984892000491 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 984892000492 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 984892000493 substrate binding site [chemical binding]; other site 984892000494 oxyanion hole (OAH) forming residues; other site 984892000495 trimer interface [polypeptide binding]; other site 984892000496 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 984892000497 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984892000498 active site 984892000499 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 984892000500 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 984892000501 acyl-activating enzyme (AAE) consensus motif; other site 984892000502 AMP binding site [chemical binding]; other site 984892000503 active site 984892000504 CoA binding site [chemical binding]; other site 984892000505 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 984892000506 Coenzyme A transferase; Region: CoA_trans; smart00882 984892000507 Coenzyme A transferase; Region: CoA_trans; cl17247 984892000508 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 984892000509 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892000510 putative substrate translocation pore; other site 984892000511 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984892000512 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 984892000513 active site 984892000514 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 984892000515 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 984892000516 dimer interface [polypeptide binding]; other site 984892000517 conserved gate region; other site 984892000518 putative PBP binding loops; other site 984892000519 ABC-ATPase subunit interface; other site 984892000520 NMT1-like family; Region: NMT1_2; pfam13379 984892000521 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 984892000522 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 984892000523 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 984892000524 Walker A/P-loop; other site 984892000525 ATP binding site [chemical binding]; other site 984892000526 Q-loop/lid; other site 984892000527 ABC transporter signature motif; other site 984892000528 Walker B; other site 984892000529 D-loop; other site 984892000530 H-loop/switch region; other site 984892000531 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 984892000532 AAA domain; Region: AAA_17; pfam13207 984892000533 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 984892000534 putative catalytic residues [active] 984892000535 Transcriptional regulators [Transcription]; Region: PurR; COG1609 984892000536 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 984892000537 DNA binding site [nucleotide binding] 984892000538 domain linker motif; other site 984892000539 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 984892000540 dimerization interface [polypeptide binding]; other site 984892000541 ligand binding site [chemical binding]; other site 984892000542 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 984892000543 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 984892000544 substrate binding site [chemical binding]; other site 984892000545 dimer interface [polypeptide binding]; other site 984892000546 ATP binding site [chemical binding]; other site 984892000547 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 984892000548 Electron transfer DM13; Region: DM13; pfam10517 984892000549 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892000550 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 984892000551 active site 984892000552 phosphorylation site [posttranslational modification] 984892000553 intermolecular recognition site; other site 984892000554 dimerization interface [polypeptide binding]; other site 984892000555 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 984892000556 DNA binding site [nucleotide binding] 984892000557 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984892000558 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 984892000559 dimerization interface [polypeptide binding]; other site 984892000560 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 984892000561 dimer interface [polypeptide binding]; other site 984892000562 phosphorylation site [posttranslational modification] 984892000563 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 984892000564 ATP binding site [chemical binding]; other site 984892000565 Mg2+ binding site [ion binding]; other site 984892000566 G-X-G motif; other site 984892000567 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 984892000568 HTH domain; Region: HTH_11; pfam08279 984892000569 HTH domain; Region: HTH_11; pfam08279 984892000570 PRD domain; Region: PRD; pfam00874 984892000571 PRD domain; Region: PRD; pfam00874 984892000572 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 984892000573 active site 984892000574 P-loop; other site 984892000575 phosphorylation site [posttranslational modification] 984892000576 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 984892000577 active site 984892000578 phosphorylation site [posttranslational modification] 984892000579 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 984892000580 active site 984892000581 phosphorylation site [posttranslational modification] 984892000582 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 984892000583 active site 984892000584 P-loop; other site 984892000585 phosphorylation site [posttranslational modification] 984892000586 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 984892000587 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 984892000588 Class III ribonucleotide reductase; Region: RNR_III; cd01675 984892000589 effector binding site; other site 984892000590 active site 984892000591 Zn binding site [ion binding]; other site 984892000592 glycine loop; other site 984892000593 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 984892000594 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 984892000595 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 984892000596 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 984892000597 homodimer interface [polypeptide binding]; other site 984892000598 substrate-cofactor binding pocket; other site 984892000599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892000600 catalytic residue [active] 984892000601 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 984892000602 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 984892000603 active site 984892000604 non-prolyl cis peptide bond; other site 984892000605 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 984892000606 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 984892000607 Na binding site [ion binding]; other site 984892000608 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 984892000609 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 984892000610 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 984892000611 potential catalytic triad [active] 984892000612 conserved cys residue [active] 984892000613 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 984892000614 intersubunit interface [polypeptide binding]; other site 984892000615 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 984892000616 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 984892000617 YodA lipocalin-like domain; Region: YodA; pfam09223 984892000618 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 984892000619 catalytic residue [active] 984892000620 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 984892000621 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 984892000622 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 984892000623 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 984892000624 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 984892000625 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 984892000626 putative substrate translocation pore; other site 984892000627 Response regulator receiver domain; Region: Response_reg; pfam00072 984892000628 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 984892000629 active site 984892000630 phosphorylation site [posttranslational modification] 984892000631 intermolecular recognition site; other site 984892000632 dimerization interface [polypeptide binding]; other site 984892000633 Helix-turn-helix domain; Region: HTH_18; pfam12833 984892000634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984892000635 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 984892000636 Histidine kinase; Region: His_kinase; pfam06580 984892000637 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 984892000638 ATP binding site [chemical binding]; other site 984892000639 Mg2+ binding site [ion binding]; other site 984892000640 G-X-G motif; other site 984892000641 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 984892000642 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 984892000643 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 984892000644 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 984892000645 active site 984892000646 tetramer interface; other site 984892000647 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 984892000648 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 984892000649 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 984892000650 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892000651 putative substrate translocation pore; other site 984892000652 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 984892000653 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 984892000654 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 984892000655 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 984892000656 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 984892000657 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 984892000658 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 984892000659 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 984892000660 active site 984892000661 dimerization interface [polypeptide binding]; other site 984892000662 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 984892000663 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 984892000664 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984892000665 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 984892000666 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 984892000667 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 984892000668 putative active site [active] 984892000669 catalytic site [active] 984892000670 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 984892000671 putative active site [active] 984892000672 catalytic site [active] 984892000673 ThiC-associated domain; Region: ThiC-associated; pfam13667 984892000674 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 984892000675 ThiC family; Region: ThiC; pfam01964 984892000676 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 984892000677 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 984892000678 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 984892000679 putative substrate translocation pore; other site 984892000680 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 984892000681 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 984892000682 non-specific DNA binding site [nucleotide binding]; other site 984892000683 salt bridge; other site 984892000684 sequence-specific DNA binding site [nucleotide binding]; other site 984892000685 Cupin domain; Region: Cupin_2; pfam07883 984892000686 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 984892000687 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 984892000688 Catalytic site [active] 984892000689 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 984892000690 dimer interface [polypeptide binding]; other site 984892000691 Alkaline phosphatase homologues; Region: alkPPc; smart00098 984892000692 active site 984892000693 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 984892000694 active site 984892000695 8-oxo-dGMP binding site [chemical binding]; other site 984892000696 nudix motif; other site 984892000697 metal binding site [ion binding]; metal-binding site 984892000698 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 984892000699 PLD-like domain; Region: PLDc_2; pfam13091 984892000700 putative homodimer interface [polypeptide binding]; other site 984892000701 putative active site [active] 984892000702 catalytic site [active] 984892000703 DEAD-like helicases superfamily; Region: DEXDc; smart00487 984892000704 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 984892000705 ATP binding site [chemical binding]; other site 984892000706 putative Mg++ binding site [ion binding]; other site 984892000707 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 984892000708 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 984892000709 nucleotide binding region [chemical binding]; other site 984892000710 ATP-binding site [chemical binding]; other site 984892000711 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 984892000712 manganese transport protein MntH; Reviewed; Region: PRK00701 984892000713 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 984892000714 BCCT family transporter; Region: BCCT; pfam02028 984892000715 Predicted transcriptional regulators [Transcription]; Region: COG1510 984892000716 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 984892000717 glycine betaine aldehyde dehydrogenase; Region: BADH; TIGR01804 984892000718 tetramerization interface [polypeptide binding]; other site 984892000719 NAD(P) binding site [chemical binding]; other site 984892000720 catalytic residues [active] 984892000721 choline dehydrogenase; Validated; Region: PRK02106 984892000722 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892000723 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 984892000724 ornithine carbamoyltransferase; Validated; Region: PRK02102 984892000725 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 984892000726 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 984892000727 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 984892000728 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 984892000729 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 984892000730 metal binding site [ion binding]; metal-binding site 984892000731 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 984892000732 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 984892000733 substrate binding site [chemical binding]; other site 984892000734 glutamase interaction surface [polypeptide binding]; other site 984892000735 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 984892000736 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 984892000737 catalytic residues [active] 984892000738 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 984892000739 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 984892000740 putative active site [active] 984892000741 oxyanion strand; other site 984892000742 catalytic triad [active] 984892000743 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 984892000744 putative active site pocket [active] 984892000745 4-fold oligomerization interface [polypeptide binding]; other site 984892000746 metal binding residues [ion binding]; metal-binding site 984892000747 3-fold/trimer interface [polypeptide binding]; other site 984892000748 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 984892000749 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 984892000750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892000751 homodimer interface [polypeptide binding]; other site 984892000752 catalytic residue [active] 984892000753 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 984892000754 histidinol dehydrogenase; Region: hisD; TIGR00069 984892000755 NAD binding site [chemical binding]; other site 984892000756 dimerization interface [polypeptide binding]; other site 984892000757 product binding site; other site 984892000758 substrate binding site [chemical binding]; other site 984892000759 zinc binding site [ion binding]; other site 984892000760 catalytic residues [active] 984892000761 ATP phosphoribosyltransferase; Region: HisG; cl15266 984892000762 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 984892000763 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12294 984892000764 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 984892000765 intersubunit interface [polypeptide binding]; other site 984892000766 active site 984892000767 catalytic residue [active] 984892000768 phosphopentomutase; Provisional; Region: PRK05362 984892000769 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 984892000770 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 984892000771 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 984892000772 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 984892000773 GAF domain; Region: GAF_3; pfam13492 984892000774 Histidine kinase; Region: His_kinase; pfam06580 984892000775 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 984892000776 ATP binding site [chemical binding]; other site 984892000777 Mg2+ binding site [ion binding]; other site 984892000778 G-X-G motif; other site 984892000779 two-component response regulator; Provisional; Region: PRK14084 984892000780 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 984892000781 active site 984892000782 phosphorylation site [posttranslational modification] 984892000783 intermolecular recognition site; other site 984892000784 dimerization interface [polypeptide binding]; other site 984892000785 LytTr DNA-binding domain; Region: LytTR; pfam04397 984892000786 murein hydrolase regulator LrgA; Provisional; Region: PRK04125 984892000787 antiholin-like protein LrgB; Provisional; Region: PRK04288 984892000788 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 984892000789 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 984892000790 DAK2 domain; Region: Dak2; cl03685 984892000791 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 984892000792 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 984892000793 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 984892000794 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 984892000795 PhnA protein; Region: PhnA; pfam03831 984892000796 succinic semialdehyde dehydrogenase; Region: PLN02278 984892000797 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 984892000798 tetramerization interface [polypeptide binding]; other site 984892000799 NAD(P) binding site [chemical binding]; other site 984892000800 catalytic residues [active] 984892000801 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 984892000802 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 984892000803 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 984892000804 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 984892000805 DNA binding residues [nucleotide binding] 984892000806 dimer interface [polypeptide binding]; other site 984892000807 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 984892000808 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 984892000809 active site 984892000810 P-loop; other site 984892000811 phosphorylation site [posttranslational modification] 984892000812 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 984892000813 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 984892000814 active site 984892000815 phosphorylation site [posttranslational modification] 984892000816 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 984892000817 CHAP domain; Region: CHAP; pfam05257 984892000818 Predicted membrane protein [Function unknown]; Region: COG1511 984892000819 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 984892000820 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 984892000821 Methyltransferase domain; Region: Methyltransf_23; pfam13489 984892000822 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 984892000823 S-adenosylmethionine binding site [chemical binding]; other site 984892000824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 984892000825 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_3; cd08490 984892000826 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 984892000827 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 984892000828 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 984892000829 dimer interface [polypeptide binding]; other site 984892000830 conserved gate region; other site 984892000831 putative PBP binding loops; other site 984892000832 ABC-ATPase subunit interface; other site 984892000833 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 984892000834 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 984892000835 dimer interface [polypeptide binding]; other site 984892000836 conserved gate region; other site 984892000837 putative PBP binding loops; other site 984892000838 ABC-ATPase subunit interface; other site 984892000839 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 984892000840 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892000841 Walker A/P-loop; other site 984892000842 ATP binding site [chemical binding]; other site 984892000843 Q-loop/lid; other site 984892000844 ABC transporter signature motif; other site 984892000845 Walker B; other site 984892000846 D-loop; other site 984892000847 H-loop/switch region; other site 984892000848 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 984892000849 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892000850 Walker A/P-loop; other site 984892000851 ATP binding site [chemical binding]; other site 984892000852 Q-loop/lid; other site 984892000853 ABC transporter signature motif; other site 984892000854 Walker B; other site 984892000855 D-loop; other site 984892000856 H-loop/switch region; other site 984892000857 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 984892000858 active site 984892000859 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 984892000860 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 984892000861 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 984892000862 active site 984892000863 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 984892000864 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 984892000865 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 984892000866 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 984892000867 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 984892000868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984892000869 NAD(P) binding site [chemical binding]; other site 984892000870 active site 984892000871 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 984892000872 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 984892000873 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 984892000874 putative ADP-binding pocket [chemical binding]; other site 984892000875 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984892000876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 984892000877 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 984892000878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 984892000879 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 984892000880 dimer interface [polypeptide binding]; other site 984892000881 FMN binding site [chemical binding]; other site 984892000882 Phosphotransferase enzyme family; Region: APH; pfam01636 984892000883 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 984892000884 active site 984892000885 ATP binding site [chemical binding]; other site 984892000886 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 984892000887 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 984892000888 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 984892000889 HlyD family secretion protein; Region: HlyD_3; pfam13437 984892000890 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984892000891 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984892000892 Walker A/P-loop; other site 984892000893 ATP binding site [chemical binding]; other site 984892000894 Q-loop/lid; other site 984892000895 ABC transporter signature motif; other site 984892000896 Walker B; other site 984892000897 D-loop; other site 984892000898 H-loop/switch region; other site 984892000899 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984892000900 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 984892000901 FtsX-like permease family; Region: FtsX; pfam02687 984892000902 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 984892000903 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 984892000904 PGAP1-like protein; Region: PGAP1; pfam07819 984892000905 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 984892000906 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 984892000907 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 984892000908 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 984892000909 Urea transporter; Region: UT; cl01829 984892000910 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 984892000911 alpha-gamma subunit interface [polypeptide binding]; other site 984892000912 beta-gamma subunit interface [polypeptide binding]; other site 984892000913 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 984892000914 gamma-beta subunit interface [polypeptide binding]; other site 984892000915 alpha-beta subunit interface [polypeptide binding]; other site 984892000916 urease subunit alpha; Reviewed; Region: ureC; PRK13207 984892000917 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 984892000918 subunit interactions [polypeptide binding]; other site 984892000919 active site 984892000920 flap region; other site 984892000921 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 984892000922 trimer interface [polypeptide binding]; other site 984892000923 active site 984892000924 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 984892000925 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 984892000926 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 984892000927 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 984892000928 Ligand Binding Site [chemical binding]; other site 984892000929 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 984892000930 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 984892000931 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 984892000932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984892000933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984892000934 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 984892000935 putative dimerization interface [polypeptide binding]; other site 984892000936 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 984892000937 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 984892000938 Transcriptional regulators [Transcription]; Region: MarR; COG1846 984892000939 MarR family; Region: MarR; pfam01047 984892000940 Nitroreductase-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, nitrofurans and...; Region: Nitroreductase_1; cd02137 984892000941 dimer interface [polypeptide binding]; other site 984892000942 FMN binding site [chemical binding]; other site 984892000943 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 984892000944 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 984892000945 synthetase active site [active] 984892000946 NTP binding site [chemical binding]; other site 984892000947 metal binding site [ion binding]; metal-binding site 984892000948 Peptidase family M23; Region: Peptidase_M23; pfam01551 984892000949 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 984892000950 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 984892000951 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 984892000952 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 984892000953 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 984892000954 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 984892000955 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 984892000956 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 984892000957 active site 984892000958 Zn binding site [ion binding]; other site 984892000959 oxidoreductase; Provisional; Region: PRK07985 984892000960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984892000961 NAD(P) binding site [chemical binding]; other site 984892000962 active site 984892000963 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 984892000964 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892000965 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892000966 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 984892000967 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 984892000968 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 984892000969 Predicted membrane protein [Function unknown]; Region: COG2855 984892000970 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 984892000971 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 984892000972 dimer interface [polypeptide binding]; other site 984892000973 PYR/PP interface [polypeptide binding]; other site 984892000974 TPP binding site [chemical binding]; other site 984892000975 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 984892000976 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 984892000977 TPP-binding site [chemical binding]; other site 984892000978 dimer interface [polypeptide binding]; other site 984892000979 anthranilate synthase component I; Provisional; Region: PRK13567 984892000980 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 984892000981 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 984892000982 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 984892000983 Glutamine amidotransferase class-I; Region: GATase; pfam00117 984892000984 glutamine binding [chemical binding]; other site 984892000985 catalytic triad [active] 984892000986 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 984892000987 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 984892000988 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 984892000989 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 984892000990 active site 984892000991 ribulose/triose binding site [chemical binding]; other site 984892000992 phosphate binding site [ion binding]; other site 984892000993 substrate (anthranilate) binding pocket [chemical binding]; other site 984892000994 product (indole) binding pocket [chemical binding]; other site 984892000995 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 984892000996 active site 984892000997 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 984892000998 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 984892000999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892001000 catalytic residue [active] 984892001001 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 984892001002 substrate binding site [chemical binding]; other site 984892001003 active site 984892001004 catalytic residues [active] 984892001005 heterodimer interface [polypeptide binding]; other site 984892001006 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 984892001007 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 984892001008 motif II; other site 984892001009 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 984892001010 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 984892001011 active site 984892001012 FAD binding domain; Region: FAD_binding_4; pfam01565 984892001013 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 984892001014 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 984892001015 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 984892001016 Cysteine-rich domain; Region: CCG; pfam02754 984892001017 Cysteine-rich domain; Region: CCG; pfam02754 984892001018 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984892001019 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 984892001020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892001021 Walker A/P-loop; other site 984892001022 ATP binding site [chemical binding]; other site 984892001023 Q-loop/lid; other site 984892001024 ABC transporter signature motif; other site 984892001025 Walker B; other site 984892001026 D-loop; other site 984892001027 H-loop/switch region; other site 984892001028 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984892001029 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984892001030 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 984892001031 Walker A/P-loop; other site 984892001032 ATP binding site [chemical binding]; other site 984892001033 Q-loop/lid; other site 984892001034 ABC transporter signature motif; other site 984892001035 Walker B; other site 984892001036 D-loop; other site 984892001037 H-loop/switch region; other site 984892001038 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 984892001039 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 984892001040 DNA binding residues [nucleotide binding] 984892001041 dimer interface [polypeptide binding]; other site 984892001042 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 984892001043 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 984892001044 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 984892001045 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 984892001046 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 984892001047 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 984892001048 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 984892001049 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892001050 putative substrate translocation pore; other site 984892001051 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 984892001052 D-galactonate transporter; Region: 2A0114; TIGR00893 984892001053 putative substrate translocation pore; other site 984892001054 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 984892001055 active site 984892001056 catalytic site [active] 984892001057 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 984892001058 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 984892001059 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 984892001060 Hemerythrin-like domain; Region: Hr-like; cd12108 984892001061 Fe binding site [ion binding]; other site 984892001062 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 984892001063 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 984892001064 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 984892001065 NAD binding site [chemical binding]; other site 984892001066 Phe binding site; other site 984892001067 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 984892001068 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 984892001069 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 984892001070 Pyruvate formate lyase 1; Region: PFL1; cd01678 984892001071 coenzyme A binding site [chemical binding]; other site 984892001072 active site 984892001073 catalytic residues [active] 984892001074 glycine loop; other site 984892001075 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 984892001076 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 984892001077 FeS/SAM binding site; other site 984892001078 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 984892001079 NADH(P)-binding; Region: NAD_binding_10; pfam13460 984892001080 NAD(P) binding site [chemical binding]; other site 984892001081 putative active site [active] 984892001082 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 984892001083 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 984892001084 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 984892001085 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892001086 Walker A/P-loop; other site 984892001087 ATP binding site [chemical binding]; other site 984892001088 Q-loop/lid; other site 984892001089 ABC transporter signature motif; other site 984892001090 Walker B; other site 984892001091 D-loop; other site 984892001092 H-loop/switch region; other site 984892001093 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 984892001094 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 984892001095 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892001096 Walker A/P-loop; other site 984892001097 ATP binding site [chemical binding]; other site 984892001098 Q-loop/lid; other site 984892001099 ABC transporter signature motif; other site 984892001100 Walker B; other site 984892001101 D-loop; other site 984892001102 H-loop/switch region; other site 984892001103 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 984892001104 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 984892001105 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 984892001106 dimer interface [polypeptide binding]; other site 984892001107 conserved gate region; other site 984892001108 putative PBP binding loops; other site 984892001109 ABC-ATPase subunit interface; other site 984892001110 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 984892001111 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 984892001112 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 984892001113 dimer interface [polypeptide binding]; other site 984892001114 conserved gate region; other site 984892001115 putative PBP binding loops; other site 984892001116 ABC-ATPase subunit interface; other site 984892001117 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 984892001118 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 984892001119 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 984892001120 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892001121 Walker A/P-loop; other site 984892001122 ATP binding site [chemical binding]; other site 984892001123 Q-loop/lid; other site 984892001124 ABC transporter signature motif; other site 984892001125 Walker B; other site 984892001126 D-loop; other site 984892001127 H-loop/switch region; other site 984892001128 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 984892001129 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 984892001130 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892001131 Walker A/P-loop; other site 984892001132 ATP binding site [chemical binding]; other site 984892001133 Q-loop/lid; other site 984892001134 ABC transporter signature motif; other site 984892001135 Walker B; other site 984892001136 D-loop; other site 984892001137 H-loop/switch region; other site 984892001138 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 984892001139 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 984892001140 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 984892001141 dimer interface [polypeptide binding]; other site 984892001142 conserved gate region; other site 984892001143 putative PBP binding loops; other site 984892001144 ABC-ATPase subunit interface; other site 984892001145 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 984892001146 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 984892001147 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 984892001148 dimer interface [polypeptide binding]; other site 984892001149 conserved gate region; other site 984892001150 putative PBP binding loops; other site 984892001151 ABC-ATPase subunit interface; other site 984892001152 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 984892001153 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 984892001154 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 984892001155 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 984892001156 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 984892001157 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 984892001158 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 984892001159 putative phosphoesterase; Region: acc_ester; TIGR03729 984892001160 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 984892001161 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 984892001162 NAD(P) binding site [chemical binding]; other site 984892001163 catalytic residues [active] 984892001164 Replication initiation factor; Region: Rep_trans; pfam02486 984892001165 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 984892001166 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 984892001167 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 984892001168 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 984892001169 transmembrane helices; other site 984892001170 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 984892001171 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 984892001172 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892001173 Coenzyme A binding pocket [chemical binding]; other site 984892001174 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 984892001175 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 984892001176 putative active site [active] 984892001177 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 984892001178 active site 984892001179 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 984892001180 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 984892001181 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892001182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892001183 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 984892001184 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 984892001185 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 984892001186 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 984892001187 [2Fe-2S] cluster binding site [ion binding]; other site 984892001188 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 984892001189 active site 984892001190 SAM binding site [chemical binding]; other site 984892001191 homodimer interface [polypeptide binding]; other site 984892001192 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 984892001193 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 984892001194 active site 984892001195 metal binding site [ion binding]; metal-binding site 984892001196 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 984892001197 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 984892001198 YcaO-like family; Region: YcaO; pfam02624 984892001199 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 984892001200 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 984892001201 putative FMN binding site [chemical binding]; other site 984892001202 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 984892001203 NADPH bind site [chemical binding]; other site 984892001204 putative FMN binding site [chemical binding]; other site 984892001205 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 984892001206 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 984892001207 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 984892001208 active site 984892001209 HIGH motif; other site 984892001210 KMSK motif region; other site 984892001211 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 984892001212 tRNA binding surface [nucleotide binding]; other site 984892001213 anticodon binding site; other site 984892001214 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 984892001215 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 984892001216 [4Fe-4S] binding site [ion binding]; other site 984892001217 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 984892001218 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 984892001219 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 984892001220 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 984892001221 molybdopterin cofactor binding site; other site 984892001222 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 984892001223 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 984892001224 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 984892001225 GAF domain; Region: GAF; pfam01590 984892001226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 984892001227 Histidine kinase; Region: HisKA_3; pfam07730 984892001228 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 984892001229 ATP binding site [chemical binding]; other site 984892001230 Mg2+ binding site [ion binding]; other site 984892001231 G-X-G motif; other site 984892001232 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 984892001233 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 984892001234 active site 984892001235 phosphorylation site [posttranslational modification] 984892001236 intermolecular recognition site; other site 984892001237 dimerization interface [polypeptide binding]; other site 984892001238 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 984892001239 DNA binding residues [nucleotide binding] 984892001240 dimerization interface [polypeptide binding]; other site 984892001241 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 984892001242 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 984892001243 putative substrate translocation pore; other site 984892001244 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 984892001245 putative metal binding site [ion binding]; other site 984892001246 putative dimer interface [polypeptide binding]; other site 984892001247 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 984892001248 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 984892001249 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 984892001250 NAD(P) binding site [chemical binding]; other site 984892001251 LDH/MDH dimer interface [polypeptide binding]; other site 984892001252 substrate binding site [chemical binding]; other site 984892001253 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 984892001254 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 984892001255 oligomer interface [polypeptide binding]; other site 984892001256 active site 984892001257 metal binding site [ion binding]; metal-binding site 984892001258 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 984892001259 EamA-like transporter family; Region: EamA; pfam00892 984892001260 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 984892001261 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 984892001262 putative substrate translocation pore; other site 984892001263 Helix-turn-helix domain; Region: HTH_18; pfam12833 984892001264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984892001265 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 984892001266 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 984892001267 active site turn [active] 984892001268 phosphorylation site [posttranslational modification] 984892001269 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 984892001270 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 984892001271 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 984892001272 Cl binding site [ion binding]; other site 984892001273 oligomer interface [polypeptide binding]; other site 984892001274 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984892001275 MarR family; Region: MarR_2; pfam12802 984892001276 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 984892001277 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 984892001278 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 984892001279 PhoU domain; Region: PhoU; pfam01895 984892001280 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 984892001281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 984892001282 Transposase; Region: DDE_Tnp_ISL3; pfam01610 984892001283 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 984892001284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892001285 Coenzyme A binding pocket [chemical binding]; other site 984892001286 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 984892001287 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892001288 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 984892001289 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 984892001290 putative substrate translocation pore; other site 984892001291 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 984892001292 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 984892001293 NAD(P) binding site [chemical binding]; other site 984892001294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 984892001295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892001296 Coenzyme A binding pocket [chemical binding]; other site 984892001297 L-lactate permease; Region: Lactate_perm; cl00701 984892001298 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 984892001299 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984892001300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984892001301 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984892001302 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984892001303 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 984892001304 putative ADP-binding pocket [chemical binding]; other site 984892001305 malate:quinone oxidoreductase; Validated; Region: PRK05257 984892001306 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 984892001307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984892001308 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 984892001309 dimerization interface [polypeptide binding]; other site 984892001310 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 984892001311 ATP binding site [chemical binding]; other site 984892001312 Mg2+ binding site [ion binding]; other site 984892001313 G-X-G motif; other site 984892001314 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892001315 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 984892001316 active site 984892001317 phosphorylation site [posttranslational modification] 984892001318 intermolecular recognition site; other site 984892001319 dimerization interface [polypeptide binding]; other site 984892001320 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 984892001321 DNA binding site [nucleotide binding] 984892001322 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984892001323 FtsX-like permease family; Region: FtsX; pfam02687 984892001324 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984892001325 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984892001326 Walker A/P-loop; other site 984892001327 ATP binding site [chemical binding]; other site 984892001328 Q-loop/lid; other site 984892001329 ABC transporter signature motif; other site 984892001330 Walker B; other site 984892001331 D-loop; other site 984892001332 H-loop/switch region; other site 984892001333 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 984892001334 putative active site [active] 984892001335 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984892001336 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 984892001337 putative DNA binding site [nucleotide binding]; other site 984892001338 putative Zn2+ binding site [ion binding]; other site 984892001339 Predicted membrane protein [Function unknown]; Region: COG4640 984892001340 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 984892001341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984892001342 Putative transcription activator [Transcription]; Region: TenA; COG0819 984892001343 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 984892001344 catalytic residues [active] 984892001345 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 984892001346 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 984892001347 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 984892001348 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 984892001349 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 984892001350 active site 984892001351 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 984892001352 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 984892001353 homotetramer interface [polypeptide binding]; other site 984892001354 FMN binding site [chemical binding]; other site 984892001355 homodimer contacts [polypeptide binding]; other site 984892001356 putative active site [active] 984892001357 putative substrate binding site [chemical binding]; other site 984892001358 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 984892001359 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 984892001360 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 984892001361 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 984892001362 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 984892001363 putative active site [active] 984892001364 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984892001365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892001366 Walker A/P-loop; other site 984892001367 ATP binding site [chemical binding]; other site 984892001368 Q-loop/lid; other site 984892001369 ABC transporter signature motif; other site 984892001370 Walker B; other site 984892001371 D-loop; other site 984892001372 H-loop/switch region; other site 984892001373 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984892001374 Integrase core domain; Region: rve_3; cl15866 984892001375 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 984892001376 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 984892001377 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984892001378 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 984892001379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984892001380 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 984892001381 Predicted transcriptional regulators [Transcription]; Region: COG1695 984892001382 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 984892001383 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 984892001384 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 984892001385 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 984892001386 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 984892001387 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 984892001388 active site 984892001389 DNA binding site [nucleotide binding] 984892001390 Predicted membrane protein [Function unknown]; Region: COG3152 984892001391 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 984892001392 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 984892001393 Walker A/P-loop; other site 984892001394 ATP binding site [chemical binding]; other site 984892001395 Q-loop/lid; other site 984892001396 ABC transporter signature motif; other site 984892001397 Walker B; other site 984892001398 D-loop; other site 984892001399 H-loop/switch region; other site 984892001400 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 984892001401 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 984892001402 hypothetical protein; Provisional; Region: PRK02237 984892001403 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 984892001404 active site 984892001405 catalytic residues [active] 984892001406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 984892001407 MOSC domain; Region: MOSC; pfam03473 984892001408 3-alpha domain; Region: 3-alpha; pfam03475 984892001409 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 984892001410 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984892001411 active site 984892001412 dimer interface [polypeptide binding]; other site 984892001413 formimidoylglutamase; Provisional; Region: PRK13775 984892001414 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 984892001415 putative active site [active] 984892001416 putative metal binding site [ion binding]; other site 984892001417 CAAX protease self-immunity; Region: Abi; pfam02517 984892001418 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984892001419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984892001420 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 984892001421 dimerization interface [polypeptide binding]; other site 984892001422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 984892001423 Nucleoside recognition; Region: Gate; pfam07670 984892001424 urocanate hydratase; Provisional; Region: PRK05414 984892001425 imidazolonepropionase; Validated; Region: PRK09356 984892001426 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 984892001427 active site 984892001428 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 984892001429 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 984892001430 Sulfate transporter family; Region: Sulfate_transp; pfam00916 984892001431 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 984892001432 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 984892001433 metal binding site [ion binding]; metal-binding site 984892001434 dimer interface [polypeptide binding]; other site 984892001435 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 984892001436 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 984892001437 putative hydrophobic ligand binding site [chemical binding]; other site 984892001438 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 984892001439 Sodium Bile acid symporter family; Region: SBF; pfam01758 984892001440 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 984892001441 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984892001442 Zn binding site [ion binding]; other site 984892001443 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 984892001444 active site 984892001445 metal binding site [ion binding]; metal-binding site 984892001446 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 984892001447 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 984892001448 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 984892001449 motif II; other site 984892001450 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 984892001451 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 984892001452 CAAX protease self-immunity; Region: Abi; pfam02517 984892001453 Predicted transcriptional regulator [Transcription]; Region: COG2378 984892001454 HTH domain; Region: HTH_11; pfam08279 984892001455 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 984892001456 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 984892001457 active site 984892001458 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 984892001459 Protein of unknown function (DUF969); Region: DUF969; pfam06149 984892001460 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 984892001461 putative substrate binding pocket [chemical binding]; other site 984892001462 AC domain interface; other site 984892001463 catalytic triad [active] 984892001464 AB domain interface; other site 984892001465 interchain disulfide; other site 984892001466 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 984892001467 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 984892001468 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 984892001469 4Fe-4S binding domain; Region: Fer4_6; pfam12837 984892001470 4Fe-4S binding domain; Region: Fer4; pfam00037 984892001471 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 984892001472 [4Fe-4S] binding site [ion binding]; other site 984892001473 molybdopterin cofactor binding site; other site 984892001474 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 984892001475 molybdopterin cofactor binding site; other site 984892001476 Uncharacterized conserved protein [Function unknown]; Region: COG2427 984892001477 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 984892001478 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 984892001479 hypothetical protein; Provisional; Region: PRK06753 984892001480 hypothetical protein; Provisional; Region: PRK07236 984892001481 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 984892001482 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 984892001483 putative ligand binding site [chemical binding]; other site 984892001484 putative NAD binding site [chemical binding]; other site 984892001485 catalytic site [active] 984892001486 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 984892001487 Surface antigen [General function prediction only]; Region: COG3942 984892001488 CHAP domain; Region: CHAP; pfam05257 984892001489 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 984892001490 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 984892001491 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 984892001492 Surface antigen [General function prediction only]; Region: COG3942 984892001493 CHAP domain; Region: CHAP; pfam05257 984892001494 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 984892001495 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 984892001496 DoxX-like family; Region: DoxX_2; pfam13564 984892001497 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 984892001498 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 984892001499 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 984892001500 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 984892001501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 984892001502 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 984892001503 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 984892001504 intersubunit interface [polypeptide binding]; other site 984892001505 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 984892001506 Na binding site [ion binding]; other site 984892001507 N-acetylneuraminate lyase; Provisional; Region: PRK04147 984892001508 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 984892001509 inhibitor site; inhibition site 984892001510 active site 984892001511 dimer interface [polypeptide binding]; other site 984892001512 catalytic residue [active] 984892001513 Transcriptional regulators [Transcription]; Region: FadR; COG2186 984892001514 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892001515 DNA-binding site [nucleotide binding]; DNA binding site 984892001516 FCD domain; Region: FCD; pfam07729 984892001517 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 984892001518 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 984892001519 nucleotide binding site [chemical binding]; other site 984892001520 BioY family; Region: BioY; pfam02632 984892001521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892001522 Coenzyme A binding pocket [chemical binding]; other site 984892001523 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 984892001524 Transcriptional regulators [Transcription]; Region: PurR; COG1609 984892001525 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 984892001526 DNA binding site [nucleotide binding] 984892001527 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 984892001528 galactokinase; Provisional; Region: PRK05322 984892001529 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 984892001530 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984892001531 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 984892001532 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 984892001533 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 984892001534 NAD binding site [chemical binding]; other site 984892001535 homodimer interface [polypeptide binding]; other site 984892001536 active site 984892001537 substrate binding site [chemical binding]; other site 984892001538 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 984892001539 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 984892001540 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 984892001541 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 984892001542 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 984892001543 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 984892001544 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 984892001545 dimer interface [polypeptide binding]; other site 984892001546 conserved gate region; other site 984892001547 putative PBP binding loops; other site 984892001548 ABC-ATPase subunit interface; other site 984892001549 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892001550 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 984892001551 Walker A/P-loop; other site 984892001552 ATP binding site [chemical binding]; other site 984892001553 Q-loop/lid; other site 984892001554 ABC transporter signature motif; other site 984892001555 Walker B; other site 984892001556 D-loop; other site 984892001557 H-loop/switch region; other site 984892001558 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 984892001559 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 984892001560 ATP binding site [chemical binding]; other site 984892001561 substrate interface [chemical binding]; other site 984892001562 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 984892001563 MPT binding site; other site 984892001564 trimer interface [polypeptide binding]; other site 984892001565 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 984892001566 trimer interface [polypeptide binding]; other site 984892001567 dimer interface [polypeptide binding]; other site 984892001568 putative active site [active] 984892001569 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 984892001570 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 984892001571 dimer interface [polypeptide binding]; other site 984892001572 putative functional site; other site 984892001573 putative MPT binding site; other site 984892001574 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 984892001575 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 984892001576 MoaE homodimer interface [polypeptide binding]; other site 984892001577 MoaD interaction [polypeptide binding]; other site 984892001578 active site residues [active] 984892001579 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 984892001580 MoaE interaction surface [polypeptide binding]; other site 984892001581 MoeB interaction surface [polypeptide binding]; other site 984892001582 thiocarboxylated glycine; other site 984892001583 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 984892001584 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 984892001585 GTP binding site; other site 984892001586 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 984892001587 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 984892001588 FeS/SAM binding site; other site 984892001589 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 984892001590 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 984892001591 generic binding surface II; other site 984892001592 generic binding surface I; other site 984892001593 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 984892001594 putative catalytic site [active] 984892001595 putative metal binding site [ion binding]; other site 984892001596 putative phosphate binding site [ion binding]; other site 984892001597 MarR family; Region: MarR_2; pfam12802 984892001598 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 984892001599 FemAB family; Region: FemAB; pfam02388 984892001600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 984892001601 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 984892001602 Protein export membrane protein; Region: SecD_SecF; cl14618 984892001603 Protein export membrane protein; Region: SecD_SecF; cl14618 984892001604 transaminase; Reviewed; Region: PRK08068 984892001605 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 984892001606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892001607 homodimer interface [polypeptide binding]; other site 984892001608 catalytic residue [active] 984892001609 Predicted permeases [General function prediction only]; Region: COG0679 984892001610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892001611 Coenzyme A binding pocket [chemical binding]; other site 984892001612 DNA topoisomerase III; Provisional; Region: PRK07726 984892001613 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 984892001614 active site 984892001615 putative interdomain interaction site [polypeptide binding]; other site 984892001616 putative metal-binding site [ion binding]; other site 984892001617 putative nucleotide binding site [chemical binding]; other site 984892001618 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 984892001619 domain I; other site 984892001620 DNA binding groove [nucleotide binding] 984892001621 phosphate binding site [ion binding]; other site 984892001622 domain II; other site 984892001623 domain III; other site 984892001624 nucleotide binding site [chemical binding]; other site 984892001625 catalytic site [active] 984892001626 domain IV; other site 984892001627 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 984892001628 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 984892001629 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 984892001630 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 984892001631 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 984892001632 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 984892001633 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 984892001634 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 984892001635 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 984892001636 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 984892001637 putative translocon binding site; other site 984892001638 protein-rRNA interface [nucleotide binding]; other site 984892001639 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 984892001640 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 984892001641 G-X-X-G motif; other site 984892001642 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 984892001643 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 984892001644 23S rRNA interface [nucleotide binding]; other site 984892001645 5S rRNA interface [nucleotide binding]; other site 984892001646 putative antibiotic binding site [chemical binding]; other site 984892001647 L25 interface [polypeptide binding]; other site 984892001648 L27 interface [polypeptide binding]; other site 984892001649 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 984892001650 23S rRNA interface [nucleotide binding]; other site 984892001651 putative translocon interaction site; other site 984892001652 signal recognition particle (SRP54) interaction site; other site 984892001653 L23 interface [polypeptide binding]; other site 984892001654 trigger factor interaction site; other site 984892001655 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 984892001656 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 984892001657 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 984892001658 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 984892001659 RNA binding site [nucleotide binding]; other site 984892001660 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 984892001661 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 984892001662 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 984892001663 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 984892001664 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 984892001665 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 984892001666 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 984892001667 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 984892001668 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 984892001669 5S rRNA interface [nucleotide binding]; other site 984892001670 L27 interface [polypeptide binding]; other site 984892001671 23S rRNA interface [nucleotide binding]; other site 984892001672 L5 interface [polypeptide binding]; other site 984892001673 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 984892001674 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 984892001675 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 984892001676 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 984892001677 23S rRNA binding site [nucleotide binding]; other site 984892001678 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 984892001679 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 984892001680 SecY translocase; Region: SecY; pfam00344 984892001681 adenylate kinase; Reviewed; Region: adk; PRK00279 984892001682 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 984892001683 AMP-binding site [chemical binding]; other site 984892001684 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 984892001685 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 984892001686 rRNA binding site [nucleotide binding]; other site 984892001687 predicted 30S ribosome binding site; other site 984892001688 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 984892001689 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 984892001690 30S ribosomal protein S13; Region: bact_S13; TIGR03631 984892001691 30S ribosomal protein S11; Validated; Region: PRK05309 984892001692 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 984892001693 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 984892001694 alphaNTD homodimer interface [polypeptide binding]; other site 984892001695 alphaNTD - beta interaction site [polypeptide binding]; other site 984892001696 alphaNTD - beta' interaction site [polypeptide binding]; other site 984892001697 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 984892001698 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 984892001699 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13648 984892001700 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 984892001701 Walker A/P-loop; other site 984892001702 ATP binding site [chemical binding]; other site 984892001703 Q-loop/lid; other site 984892001704 ABC transporter signature motif; other site 984892001705 Walker B; other site 984892001706 D-loop; other site 984892001707 H-loop/switch region; other site 984892001708 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13646 984892001709 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 984892001710 Walker A/P-loop; other site 984892001711 ATP binding site [chemical binding]; other site 984892001712 Q-loop/lid; other site 984892001713 ABC transporter signature motif; other site 984892001714 Walker B; other site 984892001715 D-loop; other site 984892001716 H-loop/switch region; other site 984892001717 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 984892001718 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 984892001719 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 984892001720 dimerization interface 3.5A [polypeptide binding]; other site 984892001721 active site 984892001722 ribosomal protein L13 leader; SPSE_0604 984892001723 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 984892001724 23S rRNA interface [nucleotide binding]; other site 984892001725 L3 interface [polypeptide binding]; other site 984892001726 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 984892001727 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 984892001728 Divergent AAA domain; Region: AAA_4; pfam04326 984892001729 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 984892001730 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 984892001731 putative DNA binding site [nucleotide binding]; other site 984892001732 putative Zn2+ binding site [ion binding]; other site 984892001733 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892001734 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892001735 putative active site [active] 984892001736 putative NTP binding site [chemical binding]; other site 984892001737 putative nucleic acid binding site [nucleotide binding]; other site 984892001738 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892001739 Isochorismatase family; Region: Isochorismatase; pfam00857 984892001740 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 984892001741 catalytic triad [active] 984892001742 conserved cis-peptide bond; other site 984892001743 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 984892001744 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 984892001745 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 984892001746 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 984892001747 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 984892001748 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 984892001749 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 984892001750 active site 984892001751 methionine cluster; other site 984892001752 phosphorylation site [posttranslational modification] 984892001753 metal binding site [ion binding]; metal-binding site 984892001754 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 984892001755 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 984892001756 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 984892001757 active site 984892001758 P-loop; other site 984892001759 phosphorylation site [posttranslational modification] 984892001760 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 984892001761 beta-galactosidase; Region: BGL; TIGR03356 984892001762 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 984892001763 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 984892001764 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 984892001765 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 984892001766 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 984892001767 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 984892001768 putative NAD(P) binding site [chemical binding]; other site 984892001769 dimer interface [polypeptide binding]; other site 984892001770 BCCT family transporter; Region: BCCT; pfam02028 984892001771 Asp23 family; Region: Asp23; cl00574 984892001772 Asp23 family; Region: Asp23; pfam03780 984892001773 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 984892001774 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892001775 putative substrate translocation pore; other site 984892001776 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 984892001777 IucA / IucC family; Region: IucA_IucC; pfam04183 984892001778 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 984892001779 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 984892001780 putative substrate translocation pore; other site 984892001781 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 984892001782 IucA / IucC family; Region: IucA_IucC; pfam04183 984892001783 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 984892001784 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 984892001785 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 984892001786 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984892001787 catalytic residue [active] 984892001788 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 984892001789 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 984892001790 siderophore binding site; other site 984892001791 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 984892001792 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 984892001793 ABC-ATPase subunit interface; other site 984892001794 dimer interface [polypeptide binding]; other site 984892001795 putative PBP binding regions; other site 984892001796 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 984892001797 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 984892001798 ABC-ATPase subunit interface; other site 984892001799 dimer interface [polypeptide binding]; other site 984892001800 putative PBP binding regions; other site 984892001801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 984892001802 Nucleoside recognition; Region: Gate; pfam07670 984892001803 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 984892001804 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 984892001805 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 984892001806 active site 984892001807 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 984892001808 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 984892001809 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892001810 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 984892001811 putative substrate translocation pore; other site 984892001812 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 984892001813 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892001814 putative substrate translocation pore; other site 984892001815 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 984892001816 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 984892001817 Walker A motif; other site 984892001818 Arginase family; Region: Arginase; cd09989 984892001819 active site 984892001820 Mn binding site [ion binding]; other site 984892001821 oligomer interface [polypeptide binding]; other site 984892001822 TIGR00159 family protein; Region: TIGR00159 984892001823 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 984892001824 YbbR-like protein; Region: YbbR; pfam07949 984892001825 YbbR-like protein; Region: YbbR; pfam07949 984892001826 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 984892001827 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 984892001828 active site 984892001829 substrate binding site [chemical binding]; other site 984892001830 metal binding site [ion binding]; metal-binding site 984892001831 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 984892001832 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 984892001833 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 984892001834 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 984892001835 active site 984892001836 phosphorylation site [posttranslational modification] 984892001837 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 984892001838 HTH domain; Region: HTH_11; pfam08279 984892001839 PRD domain; Region: PRD; pfam00874 984892001840 PRD domain; Region: PRD; pfam00874 984892001841 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 984892001842 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 984892001843 active site 984892001844 phosphorylation site [posttranslational modification] 984892001845 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 984892001846 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 984892001847 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 984892001848 active site 984892001849 P-loop; other site 984892001850 phosphorylation site [posttranslational modification] 984892001851 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 984892001852 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 984892001853 glutaminase active site [active] 984892001854 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 984892001855 dimer interface [polypeptide binding]; other site 984892001856 active site 984892001857 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 984892001858 dimer interface [polypeptide binding]; other site 984892001859 active site 984892001860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892001861 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 984892001862 Walker A/P-loop; other site 984892001863 ATP binding site [chemical binding]; other site 984892001864 Q-loop/lid; other site 984892001865 ABC transporter signature motif; other site 984892001866 Walker B; other site 984892001867 D-loop; other site 984892001868 H-loop/switch region; other site 984892001869 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 984892001870 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 984892001871 active site 984892001872 motif I; other site 984892001873 motif II; other site 984892001874 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 984892001875 Transcriptional regulators [Transcription]; Region: FadR; COG2186 984892001876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892001877 DNA-binding site [nucleotide binding]; DNA binding site 984892001878 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 984892001879 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 984892001880 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 984892001881 EVE domain; Region: EVE; cl00728 984892001882 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 984892001883 Protein of unknown function, DUF393; Region: DUF393; cl01136 984892001884 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 984892001885 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 984892001886 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 984892001887 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 984892001888 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 984892001889 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 984892001890 Predicted membrane protein [Function unknown]; Region: COG4270 984892001891 S-ribosylhomocysteinase; Provisional; Region: PRK02260 984892001892 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 984892001893 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 984892001894 metal binding site [ion binding]; metal-binding site 984892001895 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 984892001896 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 984892001897 pantothenate kinase; Provisional; Region: PRK13317 984892001898 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 984892001899 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 984892001900 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984892001901 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984892001902 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984892001903 BCCT family transporter; Region: BCCT; pfam02028 984892001904 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 984892001905 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892001906 Coenzyme A binding pocket [chemical binding]; other site 984892001907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984892001908 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 984892001909 CTP synthetase; Validated; Region: pyrG; PRK05380 984892001910 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 984892001911 Catalytic site [active] 984892001912 active site 984892001913 UTP binding site [chemical binding]; other site 984892001914 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 984892001915 active site 984892001916 putative oxyanion hole; other site 984892001917 catalytic triad [active] 984892001918 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 984892001919 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 984892001920 putative substrate translocation pore; other site 984892001921 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 984892001922 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 984892001923 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 984892001924 intersubunit interface [polypeptide binding]; other site 984892001925 active site 984892001926 zinc binding site [ion binding]; other site 984892001927 Na+ binding site [ion binding]; other site 984892001928 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 984892001929 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 984892001930 hinge; other site 984892001931 active site 984892001932 Predicted transcriptional regulators [Transcription]; Region: COG1733 984892001933 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 984892001934 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 984892001935 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 984892001936 NAD binding site [chemical binding]; other site 984892001937 catalytic residues [active] 984892001938 transcription termination factor Rho; Provisional; Region: rho; PRK09376 984892001939 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 984892001940 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 984892001941 RNA binding site [nucleotide binding]; other site 984892001942 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 984892001943 Walker A motif; other site 984892001944 ATP binding site [chemical binding]; other site 984892001945 Walker B motif; other site 984892001946 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 984892001947 thymidine kinase; Provisional; Region: PRK04296 984892001948 peptide chain release factor 1; Validated; Region: prfA; PRK00591 984892001949 This domain is found in peptide chain release factors; Region: PCRF; smart00937 984892001950 RF-1 domain; Region: RF-1; pfam00472 984892001951 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 984892001952 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 984892001953 S-adenosylmethionine binding site [chemical binding]; other site 984892001954 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 984892001955 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 984892001956 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 984892001957 Low molecular weight phosphatase family; Region: LMWPc; cd00115 984892001958 active site 984892001959 hypothetical protein; Provisional; Region: PRK13690 984892001960 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 984892001961 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 984892001962 dimer interface [polypeptide binding]; other site 984892001963 active site 984892001964 glycine-pyridoxal phosphate binding site [chemical binding]; other site 984892001965 folate binding site [chemical binding]; other site 984892001966 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892001967 active site 984892001968 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 984892001969 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 984892001970 active site 984892001971 homodimer interface [polypeptide binding]; other site 984892001972 ATP synthase I chain; Region: ATP_synt_I; pfam03899 984892001973 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 984892001974 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 984892001975 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 984892001976 F0F1 ATP synthase subunit B; Provisional; Region: PRK13453 984892001977 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 984892001978 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 984892001979 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 984892001980 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 984892001981 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 984892001982 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 984892001983 beta subunit interaction interface [polypeptide binding]; other site 984892001984 Walker A motif; other site 984892001985 ATP binding site [chemical binding]; other site 984892001986 Walker B motif; other site 984892001987 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 984892001988 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 984892001989 core domain interface [polypeptide binding]; other site 984892001990 delta subunit interface [polypeptide binding]; other site 984892001991 epsilon subunit interface [polypeptide binding]; other site 984892001992 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 984892001993 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 984892001994 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 984892001995 alpha subunit interaction interface [polypeptide binding]; other site 984892001996 Walker A motif; other site 984892001997 ATP binding site [chemical binding]; other site 984892001998 Walker B motif; other site 984892001999 inhibitor binding site; inhibition site 984892002000 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 984892002001 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 984892002002 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 984892002003 gamma subunit interface [polypeptide binding]; other site 984892002004 epsilon subunit interface [polypeptide binding]; other site 984892002005 LBP interface [polypeptide binding]; other site 984892002006 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 984892002007 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 984892002008 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 984892002009 hinge; other site 984892002010 active site 984892002011 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 984892002012 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 984892002013 YwpF-like protein; Region: YwpF; pfam14183 984892002014 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 984892002015 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 984892002016 dimer interface [polypeptide binding]; other site 984892002017 ssDNA binding site [nucleotide binding]; other site 984892002018 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984892002019 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 984892002020 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 984892002021 dimer interface [polypeptide binding]; other site 984892002022 substrate binding site [chemical binding]; other site 984892002023 ATP binding site [chemical binding]; other site 984892002024 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 984892002025 substrate binding site [chemical binding]; other site 984892002026 multimerization interface [polypeptide binding]; other site 984892002027 ATP binding site [chemical binding]; other site 984892002028 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 984892002029 thiamine phosphate binding site [chemical binding]; other site 984892002030 active site 984892002031 pyrophosphate binding site [ion binding]; other site 984892002032 OxaA-like protein precursor; Provisional; Region: PRK02463 984892002033 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 984892002034 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 984892002035 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984892002036 Zn2+ binding site [ion binding]; other site 984892002037 Mg2+ binding site [ion binding]; other site 984892002038 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 984892002039 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 984892002040 putative active site [active] 984892002041 catalytic site [active] 984892002042 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 984892002043 putative active site [active] 984892002044 catalytic site [active] 984892002045 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 984892002046 putative homodimer interface [polypeptide binding]; other site 984892002047 putative homotetramer interface [polypeptide binding]; other site 984892002048 allosteric switch controlling residues; other site 984892002049 putative metal binding site [ion binding]; other site 984892002050 putative homodimer-homodimer interface [polypeptide binding]; other site 984892002051 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; cl00207 984892002052 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 984892002053 metal-binding site [ion binding] 984892002054 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 984892002055 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 984892002056 metal-binding site [ion binding] 984892002057 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 984892002058 Soluble P-type ATPase [General function prediction only]; Region: COG4087 984892002059 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 984892002060 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 984892002061 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 984892002062 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 984892002063 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 984892002064 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984892002065 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984892002066 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984892002067 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 984892002068 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 984892002069 ATP binding site [chemical binding]; other site 984892002070 Mg++ binding site [ion binding]; other site 984892002071 motif III; other site 984892002072 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 984892002073 nucleotide binding region [chemical binding]; other site 984892002074 ATP-binding site [chemical binding]; other site 984892002075 Bacterial PH domain; Region: DUF304; cl01348 984892002076 Predicted membrane protein [Function unknown]; Region: COG3428 984892002077 Bacterial PH domain; Region: DUF304; pfam03703 984892002078 Bacterial PH domain; Region: DUF304; pfam03703 984892002079 Bacterial PH domain; Region: DUF304; pfam03703 984892002080 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 984892002081 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 984892002082 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 984892002083 active site 984892002084 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984892002085 dimer interface [polypeptide binding]; other site 984892002086 substrate binding site [chemical binding]; other site 984892002087 catalytic residues [active] 984892002088 PemK-like protein; Region: PemK; pfam02452 984892002089 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 984892002090 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 984892002091 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 984892002092 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 984892002093 anti sigma factor interaction site; other site 984892002094 regulatory phosphorylation site [posttranslational modification]; other site 984892002095 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 984892002096 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 984892002097 ATP binding site [chemical binding]; other site 984892002098 Mg2+ binding site [ion binding]; other site 984892002099 G-X-G motif; other site 984892002100 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 984892002101 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984892002102 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 984892002103 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 984892002104 DNA binding residues [nucleotide binding] 984892002105 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 984892002106 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 984892002107 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 984892002108 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 984892002109 RNA binding site [nucleotide binding]; other site 984892002110 hypothetical protein; Provisional; Region: PRK04351 984892002111 SprT homologues; Region: SprT; cl01182 984892002112 H+ Antiporter protein; Region: 2A0121; TIGR00900 984892002113 threonine dehydratase; Validated; Region: PRK08639 984892002114 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 984892002115 tetramer interface [polypeptide binding]; other site 984892002116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892002117 catalytic residue [active] 984892002118 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 984892002119 putative Ile/Val binding site [chemical binding]; other site 984892002120 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 984892002121 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 984892002122 substrate binding site [chemical binding]; other site 984892002123 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 984892002124 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 984892002125 substrate binding site [chemical binding]; other site 984892002126 ligand binding site [chemical binding]; other site 984892002127 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 984892002128 tartrate dehydrogenase; Region: TTC; TIGR02089 984892002129 2-isopropylmalate synthase; Validated; Region: PRK00915 984892002130 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 984892002131 active site 984892002132 catalytic residues [active] 984892002133 metal binding site [ion binding]; metal-binding site 984892002134 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 984892002135 ketol-acid reductoisomerase; Provisional; Region: PRK05479 984892002136 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 984892002137 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 984892002138 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 984892002139 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 984892002140 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 984892002141 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 984892002142 PYR/PP interface [polypeptide binding]; other site 984892002143 dimer interface [polypeptide binding]; other site 984892002144 TPP binding site [chemical binding]; other site 984892002145 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 984892002146 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 984892002147 TPP-binding site [chemical binding]; other site 984892002148 dimer interface [polypeptide binding]; other site 984892002149 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 984892002150 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 984892002151 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 984892002152 Glycoprotease family; Region: Peptidase_M22; pfam00814 984892002153 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 984892002154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892002155 Coenzyme A binding pocket [chemical binding]; other site 984892002156 UGMP family protein; Validated; Region: PRK09604 984892002157 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 984892002158 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 984892002159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892002160 Walker A/P-loop; other site 984892002161 ATP binding site [chemical binding]; other site 984892002162 Q-loop/lid; other site 984892002163 ABC transporter signature motif; other site 984892002164 Walker B; other site 984892002165 D-loop; other site 984892002166 H-loop/switch region; other site 984892002167 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 984892002168 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892002169 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892002170 ABC transporter; Region: ABC_tran_2; pfam12848 984892002171 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892002172 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 984892002173 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 984892002174 CoA binding domain; Region: CoA_binding; pfam02629 984892002175 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 984892002176 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 984892002177 putative substrate translocation pore; other site 984892002178 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 984892002179 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984892002180 MarR family; Region: MarR; pfam01047 984892002181 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 984892002182 Cytochrome P450; Region: p450; cl12078 984892002183 Transcriptional regulators [Transcription]; Region: PurR; COG1609 984892002184 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 984892002185 DNA binding site [nucleotide binding] 984892002186 domain linker motif; other site 984892002187 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 984892002188 dimerization interface [polypeptide binding]; other site 984892002189 ligand binding site [chemical binding]; other site 984892002190 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 984892002191 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 984892002192 substrate binding [chemical binding]; other site 984892002193 active site 984892002194 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 984892002195 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 984892002196 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 984892002197 putative substrate binding site [chemical binding]; other site 984892002198 putative ATP binding site [chemical binding]; other site 984892002199 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 984892002200 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 984892002201 active site 984892002202 phosphorylation site [posttranslational modification] 984892002203 intermolecular recognition site; other site 984892002204 dimerization interface [polypeptide binding]; other site 984892002205 LytTr DNA-binding domain; Region: LytTR; pfam04397 984892002206 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 984892002207 ATP binding site [chemical binding]; other site 984892002208 Mg2+ binding site [ion binding]; other site 984892002209 G-X-G motif; other site 984892002210 Staphylococcal AgrD protein; Region: AgrD; smart00794 984892002211 Accessory gene regulator B; Region: AgrB; smart00793 984892002212 Predicted amidohydrolase [General function prediction only]; Region: COG0388 984892002213 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 984892002214 putative active site [active] 984892002215 catalytic triad [active] 984892002216 putative dimer interface [polypeptide binding]; other site 984892002217 CAAX protease self-immunity; Region: Abi; pfam02517 984892002218 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 984892002219 oligomerisation interface [polypeptide binding]; other site 984892002220 mobile loop; other site 984892002221 roof hairpin; other site 984892002222 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 984892002223 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 984892002224 ring oligomerisation interface [polypeptide binding]; other site 984892002225 ATP/Mg binding site [chemical binding]; other site 984892002226 stacking interactions; other site 984892002227 hinge regions; other site 984892002228 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 984892002229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892002230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984892002231 Coenzyme A binding pocket [chemical binding]; other site 984892002232 acetylornithine deacetylase; Validated; Region: PRK08596 984892002233 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 984892002234 metal binding site [ion binding]; metal-binding site 984892002235 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 984892002236 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 984892002237 active site 984892002238 DNA binding site [nucleotide binding] 984892002239 Radical SAM superfamily; Region: Radical_SAM; pfam04055 984892002240 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 984892002241 FeS/SAM binding site; other site 984892002242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 984892002243 Transposase; Region: DDE_Tnp_ISL3; pfam01610 984892002244 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 984892002245 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 984892002246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892002247 homodimer interface [polypeptide binding]; other site 984892002248 catalytic residue [active] 984892002249 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 984892002250 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 984892002251 Walker A/P-loop; other site 984892002252 ATP binding site [chemical binding]; other site 984892002253 Q-loop/lid; other site 984892002254 ABC transporter signature motif; other site 984892002255 Walker B; other site 984892002256 D-loop; other site 984892002257 H-loop/switch region; other site 984892002258 Transcriptional regulators [Transcription]; Region: GntR; COG1802 984892002259 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892002260 DNA-binding site [nucleotide binding]; DNA binding site 984892002261 FCD domain; Region: FCD; pfam07729 984892002262 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 984892002263 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 984892002264 N- and C-terminal domain interface [polypeptide binding]; other site 984892002265 active site 984892002266 catalytic site [active] 984892002267 metal binding site [ion binding]; metal-binding site 984892002268 carbohydrate binding site [chemical binding]; other site 984892002269 ATP binding site [chemical binding]; other site 984892002270 fructuronate transporter; Provisional; Region: PRK10034; cl15264 984892002271 gluconate transporter; Region: gntP; TIGR00791 984892002272 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 984892002273 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 984892002274 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 984892002275 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892002276 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892002277 putative active site [active] 984892002278 putative NTP binding site [chemical binding]; other site 984892002279 putative nucleic acid binding site [nucleotide binding]; other site 984892002280 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892002281 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 984892002282 active site 984892002283 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 984892002284 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 984892002285 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 984892002286 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 984892002287 NAD(P) binding site [chemical binding]; other site 984892002288 catalytic residues [active] 984892002289 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892002290 Coenzyme A binding pocket [chemical binding]; other site 984892002291 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 984892002292 DHH family; Region: DHH; pfam01368 984892002293 DHHA2 domain; Region: DHHA2; pfam02833 984892002294 Isochorismatase family; Region: Isochorismatase; pfam00857 984892002295 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 984892002296 catalytic triad [active] 984892002297 conserved cis-peptide bond; other site 984892002298 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 984892002299 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 984892002300 Prephenate dehydratase; Region: PDT; pfam00800 984892002301 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 984892002302 putative L-Phe binding site [chemical binding]; other site 984892002303 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 984892002304 active site 984892002305 dimer interface [polypeptide binding]; other site 984892002306 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 984892002307 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 984892002308 active site 984892002309 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 984892002310 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 984892002311 homodimer interface [polypeptide binding]; other site 984892002312 NAD binding pocket [chemical binding]; other site 984892002313 ATP binding pocket [chemical binding]; other site 984892002314 Mg binding site [ion binding]; other site 984892002315 active-site loop [active] 984892002316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 984892002317 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 984892002318 NETI protein; Region: NETI; pfam14044 984892002319 adenylosuccinate lyase; Provisional; Region: PRK07492 984892002320 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 984892002321 tetramer interface [polypeptide binding]; other site 984892002322 active site 984892002323 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 984892002324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 984892002325 PcrB family; Region: PcrB; pfam01884 984892002326 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 984892002327 substrate binding site [chemical binding]; other site 984892002328 putative active site [active] 984892002329 dimer interface [polypeptide binding]; other site 984892002330 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 984892002331 Part of AAA domain; Region: AAA_19; pfam13245 984892002332 Family description; Region: UvrD_C_2; pfam13538 984892002333 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 984892002334 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 984892002335 nucleotide binding pocket [chemical binding]; other site 984892002336 K-X-D-G motif; other site 984892002337 catalytic site [active] 984892002338 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 984892002339 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 984892002340 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 984892002341 Dimer interface [polypeptide binding]; other site 984892002342 BRCT sequence motif; other site 984892002343 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 984892002344 putative dimer interface [polypeptide binding]; other site 984892002345 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 984892002346 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 984892002347 putative dimer interface [polypeptide binding]; other site 984892002348 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 984892002349 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 984892002350 Na binding site [ion binding]; other site 984892002351 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 984892002352 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 984892002353 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 984892002354 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 984892002355 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 984892002356 GatB domain; Region: GatB_Yqey; pfam02637 984892002357 putative lipid kinase; Reviewed; Region: PRK13337 984892002358 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 984892002359 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 984892002360 TRAM domain; Region: TRAM; cl01282 984892002361 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 984892002362 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 984892002363 S-adenosylmethionine binding site [chemical binding]; other site 984892002364 YcaO-like family; Region: YcaO; pfam02624 984892002365 H+ Antiporter protein; Region: 2A0121; TIGR00900 984892002366 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 984892002367 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892002368 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 984892002369 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892002370 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 984892002371 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 984892002372 Radical SAM superfamily; Region: Radical_SAM; pfam04055 984892002373 FeS/SAM binding site; other site 984892002374 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 984892002375 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 984892002376 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 984892002377 active site 984892002378 DNA polymerase IV; Validated; Region: PRK02406 984892002379 DNA binding site [nucleotide binding] 984892002380 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 984892002381 active site 984892002382 catalytic site [active] 984892002383 substrate binding site [chemical binding]; other site 984892002384 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 984892002385 Ferritin-like domain; Region: Ferritin; pfam00210 984892002386 ferroxidase diiron center [ion binding]; other site 984892002387 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 984892002388 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984892002389 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 984892002390 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 984892002391 catalytic triad [active] 984892002392 Predicted membrane protein [Function unknown]; Region: COG4129 984892002393 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 984892002394 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 984892002395 active site 984892002396 Predicted membrane protein [Function unknown]; Region: COG4758 984892002397 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 984892002398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 984892002399 Histidine kinase; Region: HisKA_3; pfam07730 984892002400 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 984892002401 ATP binding site [chemical binding]; other site 984892002402 Mg2+ binding site [ion binding]; other site 984892002403 G-X-G motif; other site 984892002404 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 984892002405 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 984892002406 active site 984892002407 phosphorylation site [posttranslational modification] 984892002408 intermolecular recognition site; other site 984892002409 dimerization interface [polypeptide binding]; other site 984892002410 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 984892002411 DNA binding residues [nucleotide binding] 984892002412 dimerization interface [polypeptide binding]; other site 984892002413 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 984892002414 active site clefts [active] 984892002415 zinc binding site [ion binding]; other site 984892002416 dimer interface [polypeptide binding]; other site 984892002417 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 984892002418 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 984892002419 Low molecular weight phosphatase family; Region: LMWPc; cd00115 984892002420 active site 984892002421 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 984892002422 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 984892002423 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 984892002424 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 984892002425 Radical SAM superfamily; Region: Radical_SAM; pfam04055 984892002426 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 984892002427 FeS/SAM binding site; other site 984892002428 YfkB-like domain; Region: YfkB; pfam08756 984892002429 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 984892002430 intracellular protease, PfpI family; Region: PfpI; TIGR01382 984892002431 proposed catalytic triad [active] 984892002432 conserved cys residue [active] 984892002433 pyruvate oxidase; Provisional; Region: PRK08611 984892002434 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 984892002435 PYR/PP interface [polypeptide binding]; other site 984892002436 tetramer interface [polypeptide binding]; other site 984892002437 dimer interface [polypeptide binding]; other site 984892002438 TPP binding site [chemical binding]; other site 984892002439 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 984892002440 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 984892002441 TPP-binding site [chemical binding]; other site 984892002442 glycosyltransferase; Provisional; Region: PRK13481 984892002443 Transglycosylase; Region: Transgly; pfam00912 984892002444 RecX family; Region: RecX; cl00936 984892002445 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 984892002446 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 984892002447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892002448 Walker A/P-loop; other site 984892002449 ATP binding site [chemical binding]; other site 984892002450 ABC transporter signature motif; other site 984892002451 Walker B; other site 984892002452 D-loop; other site 984892002453 H-loop/switch region; other site 984892002454 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 984892002455 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 984892002456 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 984892002457 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 984892002458 minor groove reading motif; other site 984892002459 helix-hairpin-helix signature motif; other site 984892002460 substrate binding pocket [chemical binding]; other site 984892002461 active site 984892002462 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 984892002463 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 984892002464 DNA binding and oxoG recognition site [nucleotide binding] 984892002465 hypothetical protein; Provisional; Region: PRK13662 984892002466 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984892002467 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984892002468 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 984892002469 Walker A/P-loop; other site 984892002470 ATP binding site [chemical binding]; other site 984892002471 Q-loop/lid; other site 984892002472 ABC transporter signature motif; other site 984892002473 Walker B; other site 984892002474 D-loop; other site 984892002475 H-loop/switch region; other site 984892002476 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 984892002477 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 984892002478 active site 984892002479 FMN binding site [chemical binding]; other site 984892002480 substrate binding site [chemical binding]; other site 984892002481 3Fe-4S cluster binding site [ion binding]; other site 984892002482 Predicted membrane protein [Function unknown]; Region: COG4129 984892002483 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 984892002484 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 984892002485 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 984892002486 inhibitor-cofactor binding pocket; inhibition site 984892002487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892002488 catalytic residue [active] 984892002489 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 984892002490 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 984892002491 catalytic triad [active] 984892002492 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 984892002493 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 984892002494 putative ligand binding site [chemical binding]; other site 984892002495 NAD binding site [chemical binding]; other site 984892002496 catalytic site [active] 984892002497 ferric uptake regulator; Provisional; Region: fur; PRK09462 984892002498 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 984892002499 metal binding site 2 [ion binding]; metal-binding site 984892002500 putative DNA binding helix; other site 984892002501 metal binding site 1 [ion binding]; metal-binding site 984892002502 dimer interface [polypeptide binding]; other site 984892002503 structural Zn2+ binding site [ion binding]; other site 984892002504 Protein of unknown function (DUF1617); Region: DUF1617; pfam07761 984892002505 Haemolysin XhlA; Region: XhlA; pfam10779 984892002506 Bacteriophage holin; Region: Phage_holin_1; cl02344 984892002507 potential frameshift: common BLAST hit: gi|319892537|ref|YP_004149412.1| N-acetylmuramoyl-L-alanine amidase 984892002508 CHAP domain; Region: CHAP; cl17642 984892002509 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cl02712 984892002510 amidase catalytic site [active] 984892002511 Zn binding residues [ion binding]; other site 984892002512 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 984892002513 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 984892002514 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 984892002515 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 984892002516 substrate binding pocket [chemical binding]; other site 984892002517 membrane-bound complex binding site; other site 984892002518 hinge residues; other site 984892002519 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 984892002520 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 984892002521 dimer interface [polypeptide binding]; other site 984892002522 conserved gate region; other site 984892002523 ABC-ATPase subunit interface; other site 984892002524 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 984892002525 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 984892002526 Walker A/P-loop; other site 984892002527 ATP binding site [chemical binding]; other site 984892002528 Q-loop/lid; other site 984892002529 ABC transporter signature motif; other site 984892002530 Walker B; other site 984892002531 D-loop; other site 984892002532 H-loop/switch region; other site 984892002533 epoxyqueuosine reductase; Region: TIGR00276 984892002534 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 984892002535 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 984892002536 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 984892002537 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 984892002538 active site 984892002539 fumarate hydratase; Reviewed; Region: fumC; PRK00485 984892002540 Class II fumarases; Region: Fumarase_classII; cd01362 984892002541 active site 984892002542 tetramer interface [polypeptide binding]; other site 984892002543 exopolyphosphatase; Region: exo_poly_only; TIGR03706 984892002544 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 984892002545 nucleotide binding site [chemical binding]; other site 984892002546 polyphosphate kinase; Provisional; Region: PRK05443 984892002547 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 984892002548 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 984892002549 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 984892002550 putative domain interface [polypeptide binding]; other site 984892002551 putative active site [active] 984892002552 catalytic site [active] 984892002553 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 984892002554 putative domain interface [polypeptide binding]; other site 984892002555 putative active site [active] 984892002556 catalytic site [active] 984892002557 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 984892002558 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984892002559 active site 984892002560 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 984892002561 GAF domain; Region: GAF; pfam01590 984892002562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 984892002563 Histidine kinase; Region: HisKA_3; pfam07730 984892002564 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 984892002565 ATP binding site [chemical binding]; other site 984892002566 Mg2+ binding site [ion binding]; other site 984892002567 G-X-G motif; other site 984892002568 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 984892002569 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 984892002570 active site 984892002571 phosphorylation site [posttranslational modification] 984892002572 intermolecular recognition site; other site 984892002573 dimerization interface [polypeptide binding]; other site 984892002574 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 984892002575 DNA binding residues [nucleotide binding] 984892002576 dimerization interface [polypeptide binding]; other site 984892002577 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 984892002578 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 984892002579 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 984892002580 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 984892002581 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 984892002582 non-specific DNA binding site [nucleotide binding]; other site 984892002583 salt bridge; other site 984892002584 sequence-specific DNA binding site [nucleotide binding]; other site 984892002585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 984892002586 hypothetical protein; Provisional; Region: PRK13676 984892002587 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 984892002588 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 984892002589 active site 984892002590 metal binding site [ion binding]; metal-binding site 984892002591 DNA binding site [nucleotide binding] 984892002592 Uncharacterized conserved protein [Function unknown]; Region: COG4717 984892002593 P-loop containing region of AAA domain; Region: AAA_29; cl17516 984892002594 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 984892002595 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 984892002596 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 984892002597 generic binding surface II; other site 984892002598 generic binding surface I; other site 984892002599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984892002600 Zn2+ binding site [ion binding]; other site 984892002601 Mg2+ binding site [ion binding]; other site 984892002602 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 984892002603 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 984892002604 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 984892002605 transcriptional regulator Hpr; Provisional; Region: PRK13777 984892002606 MarR family; Region: MarR; pfam01047 984892002607 MarR family; Region: MarR_2; cl17246 984892002608 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 984892002609 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 984892002610 HIT family signature motif; other site 984892002611 catalytic residue [active] 984892002612 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 984892002613 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 984892002614 Walker A/P-loop; other site 984892002615 ATP binding site [chemical binding]; other site 984892002616 Q-loop/lid; other site 984892002617 ABC transporter signature motif; other site 984892002618 Walker B; other site 984892002619 D-loop; other site 984892002620 H-loop/switch region; other site 984892002621 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 984892002622 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892002623 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892002624 putative active site [active] 984892002625 putative NTP binding site [chemical binding]; other site 984892002626 putative nucleic acid binding site [nucleotide binding]; other site 984892002627 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892002628 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 984892002629 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 984892002630 substrate binding site [chemical binding]; other site 984892002631 active site 984892002632 ferrochelatase; Provisional; Region: PRK12435 984892002633 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 984892002634 C-terminal domain interface [polypeptide binding]; other site 984892002635 active site 984892002636 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 984892002637 active site 984892002638 N-terminal domain interface [polypeptide binding]; other site 984892002639 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 984892002640 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984892002641 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 984892002642 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984892002643 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 984892002644 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 984892002645 Sm and related proteins; Region: Sm_like; cl00259 984892002646 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 984892002647 beta-channel forming cytolysin; Region: hlyII; TIGR01002 984892002648 Leukocidin/Hemolysin toxin family; Region: Leukocidin; pfam07968 984892002649 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 984892002650 catalytic core [active] 984892002651 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 984892002652 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 984892002653 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 984892002654 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 984892002655 active site 984892002656 P-loop; other site 984892002657 phosphorylation site [posttranslational modification] 984892002658 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 984892002659 active site 984892002660 phosphorylation site [posttranslational modification] 984892002661 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 984892002662 active site 984892002663 dimer interface [polypeptide binding]; other site 984892002664 magnesium binding site [ion binding]; other site 984892002665 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 984892002666 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 984892002667 AP (apurinic/apyrimidinic) site pocket; other site 984892002668 DNA interaction; other site 984892002669 Metal-binding active site; metal-binding site 984892002670 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 984892002671 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 984892002672 intersubunit interface [polypeptide binding]; other site 984892002673 active site 984892002674 Zn2+ binding site [ion binding]; other site 984892002675 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 984892002676 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 984892002677 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 984892002678 acyl-activating enzyme (AAE) consensus motif; other site 984892002679 putative AMP binding site [chemical binding]; other site 984892002680 putative active site [active] 984892002681 putative CoA binding site [chemical binding]; other site 984892002682 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 984892002683 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 984892002684 metal binding site [ion binding]; metal-binding site 984892002685 substrate binding pocket [chemical binding]; other site 984892002686 Haemolytic domain; Region: Haemolytic; pfam01809 984892002687 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 984892002688 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_8; cd04665 984892002689 nudix motif; other site 984892002690 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 984892002691 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984892002692 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 984892002693 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 984892002694 active site 984892002695 substrate-binding site [chemical binding]; other site 984892002696 metal-binding site [ion binding] 984892002697 ATP binding site [chemical binding]; other site 984892002698 S-adenosylmethionine synthetase; Validated; Region: PRK05250 984892002699 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 984892002700 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 984892002701 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 984892002702 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 984892002703 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 984892002704 active site 984892002705 catalytic tetrad [active] 984892002706 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 984892002707 CrcB-like protein; Region: CRCB; cl09114 984892002708 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 984892002709 active site 984892002710 intersubunit interactions; other site 984892002711 catalytic residue [active] 984892002712 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984892002713 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 984892002714 DNA binding residues [nucleotide binding] 984892002715 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 984892002716 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 984892002717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 984892002718 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 984892002719 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 984892002720 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 984892002721 catalytic motif [active] 984892002722 Zn binding site [ion binding]; other site 984892002723 RibD C-terminal domain; Region: RibD_C; pfam01872 984892002724 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 984892002725 Lumazine binding domain; Region: Lum_binding; pfam00677 984892002726 Lumazine binding domain; Region: Lum_binding; pfam00677 984892002727 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 984892002728 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 984892002729 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 984892002730 dimerization interface [polypeptide binding]; other site 984892002731 active site 984892002732 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 984892002733 homopentamer interface [polypeptide binding]; other site 984892002734 active site 984892002735 Proline dehydrogenase; Region: Pro_dh; cl03282 984892002736 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 984892002737 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 984892002738 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 984892002739 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 984892002740 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984892002741 NAD binding site [chemical binding]; other site 984892002742 dimer interface [polypeptide binding]; other site 984892002743 substrate binding site [chemical binding]; other site 984892002744 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 984892002745 Methyltransferase domain; Region: Methyltransf_31; pfam13847 984892002746 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 984892002747 S-adenosylmethionine binding site [chemical binding]; other site 984892002748 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 984892002749 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 984892002750 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892002751 putative substrate translocation pore; other site 984892002752 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 984892002753 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 984892002754 HIGH motif; other site 984892002755 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984892002756 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 984892002757 active site 984892002758 KMSKS motif; other site 984892002759 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 984892002760 tRNA binding surface [nucleotide binding]; other site 984892002761 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 984892002762 active site residue [active] 984892002763 HI0933-like protein; Region: HI0933_like; pfam03486 984892002764 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892002765 stage V sporulation protein B; Region: spore_V_B; TIGR02900 984892002766 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 984892002767 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 984892002768 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 984892002769 RNA binding surface [nucleotide binding]; other site 984892002770 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 984892002771 active site 984892002772 uracil binding [chemical binding]; other site 984892002773 YtxH-like protein; Region: YtxH; cl02079 984892002774 dipeptidase PepV; Reviewed; Region: PRK07318 984892002775 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 984892002776 active site 984892002777 metal binding site [ion binding]; metal-binding site 984892002778 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 984892002779 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 984892002780 homodimer interface [polypeptide binding]; other site 984892002781 substrate-cofactor binding pocket; other site 984892002782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892002783 catalytic residue [active] 984892002784 Phosphotransferase enzyme family; Region: APH; pfam01636 984892002785 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 984892002786 active site 984892002787 substrate binding site [chemical binding]; other site 984892002788 ATP binding site [chemical binding]; other site 984892002789 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 984892002790 S-adenosylmethionine binding site [chemical binding]; other site 984892002791 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 984892002792 Predicted small secreted protein [Function unknown]; Region: COG5584 984892002793 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 984892002794 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 984892002795 oligomer interface [polypeptide binding]; other site 984892002796 active site 984892002797 metal binding site [ion binding]; metal-binding site 984892002798 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 984892002799 catalytic residues [active] 984892002800 hypothetical protein; Provisional; Region: PRK13668 984892002801 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 984892002802 putative tRNA-binding site [nucleotide binding]; other site 984892002803 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 984892002804 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 984892002805 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 984892002806 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 984892002807 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984892002808 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984892002809 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984892002810 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 984892002811 YtxH-like protein; Region: YtxH; pfam12732 984892002812 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 984892002813 Chorismate mutase type II; Region: CM_2; cl00693 984892002814 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 984892002815 catabolite control protein A; Region: ccpA; TIGR01481 984892002816 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 984892002817 DNA binding site [nucleotide binding] 984892002818 domain linker motif; other site 984892002819 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 984892002820 dimerization interface [polypeptide binding]; other site 984892002821 effector binding site; other site 984892002822 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 984892002823 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 984892002824 active site 984892002825 Zn binding site [ion binding]; other site 984892002826 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892002827 Coenzyme A binding pocket [chemical binding]; other site 984892002828 acetyl-CoA synthetase; Provisional; Region: PRK04319 984892002829 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 984892002830 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 984892002831 active site 984892002832 acyl-activating enzyme (AAE) consensus motif; other site 984892002833 putative CoA binding site [chemical binding]; other site 984892002834 AMP binding site [chemical binding]; other site 984892002835 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 984892002836 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 984892002837 Potassium binding sites [ion binding]; other site 984892002838 Cesium cation binding sites [ion binding]; other site 984892002839 glycosyltransferase; Provisional; Region: PRK13481 984892002840 Transglycosylase; Region: Transgly; pfam00912 984892002841 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 984892002842 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 984892002843 active site 984892002844 HIGH motif; other site 984892002845 dimer interface [polypeptide binding]; other site 984892002846 KMSKS motif; other site 984892002847 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 984892002848 RNA binding surface [nucleotide binding]; other site 984892002849 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 984892002850 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984892002851 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 984892002852 protein binding site [polypeptide binding]; other site 984892002853 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984892002854 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 984892002855 putative acyl-acceptor binding pocket; other site 984892002856 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 984892002857 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 984892002858 motif II; other site 984892002859 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 984892002860 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 984892002861 ligand binding site [chemical binding]; other site 984892002862 NAD binding site [chemical binding]; other site 984892002863 dimerization interface [polypeptide binding]; other site 984892002864 catalytic site [active] 984892002865 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 984892002866 putative L-serine binding site [chemical binding]; other site 984892002867 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 984892002868 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892002869 catalytic residue [active] 984892002870 OsmC-like protein; Region: OsmC; cl00767 984892002871 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 984892002872 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 984892002873 active site 984892002874 catalytic site [active] 984892002875 ornithine cyclodeaminase; Validated; Region: PRK08618 984892002876 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 984892002877 MAP domain; Region: MAP; pfam03642 984892002878 MAP domain; Region: MAP; pfam03642 984892002879 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 984892002880 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 984892002881 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 984892002882 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 984892002883 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 984892002884 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 984892002885 RNA binding surface [nucleotide binding]; other site 984892002886 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 984892002887 GAF domain; Region: GAF_2; pfam13185 984892002888 septation ring formation regulator EzrA; Provisional; Region: PRK04778 984892002889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 984892002890 Transposase; Region: DDE_Tnp_ISL3; pfam01610 984892002891 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 984892002892 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 984892002893 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892002894 catalytic residue [active] 984892002895 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 984892002896 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 984892002897 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 984892002898 Ligand Binding Site [chemical binding]; other site 984892002899 hypothetical protein; Provisional; Region: PRK10621 984892002900 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984892002901 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 984892002902 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 984892002903 tandem repeat interface [polypeptide binding]; other site 984892002904 oligomer interface [polypeptide binding]; other site 984892002905 active site residues [active] 984892002906 RDD family; Region: RDD; pfam06271 984892002907 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 984892002908 dimer interface [polypeptide binding]; other site 984892002909 catalytic triad [active] 984892002910 peroxidatic and resolving cysteines [active] 984892002911 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 984892002912 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 984892002913 S-adenosylmethionine binding site [chemical binding]; other site 984892002914 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 984892002915 propionate/acetate kinase; Provisional; Region: PRK12379 984892002916 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 984892002917 Ligand Binding Site [chemical binding]; other site 984892002918 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 984892002919 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 984892002920 hexamer interface [polypeptide binding]; other site 984892002921 ligand binding site [chemical binding]; other site 984892002922 putative active site [active] 984892002923 NAD(P) binding site [chemical binding]; other site 984892002924 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 984892002925 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 984892002926 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 984892002927 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 984892002928 active site 984892002929 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 984892002930 metal-dependent hydrolase; Provisional; Region: PRK00685 984892002931 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 984892002932 Ligand Binding Site [chemical binding]; other site 984892002933 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 984892002934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 984892002935 DNA-binding site [nucleotide binding]; DNA binding site 984892002936 DRTGG domain; Region: DRTGG; pfam07085 984892002937 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 984892002938 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 984892002939 DHH family; Region: DHH; pfam01368 984892002940 DHHA1 domain; Region: DHHA1; pfam02272 984892002941 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 984892002942 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 984892002943 active site 984892002944 PHP Thumb interface [polypeptide binding]; other site 984892002945 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 984892002946 generic binding surface I; other site 984892002947 generic binding surface II; other site 984892002948 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 984892002949 Malic enzyme, N-terminal domain; Region: malic; pfam00390 984892002950 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 984892002951 putative NAD(P) binding site [chemical binding]; other site 984892002952 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 984892002953 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 984892002954 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 984892002955 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 984892002956 6-phosphofructokinase; Provisional; Region: PRK03202 984892002957 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 984892002958 active site 984892002959 ADP/pyrophosphate binding site [chemical binding]; other site 984892002960 dimerization interface [polypeptide binding]; other site 984892002961 allosteric effector site; other site 984892002962 fructose-1,6-bisphosphate binding site; other site 984892002963 pyruvate kinase; Provisional; Region: PRK06354 984892002964 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 984892002965 domain interfaces; other site 984892002966 active site 984892002967 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 984892002968 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 984892002969 dimer interface [polypeptide binding]; other site 984892002970 Citrate synthase; Region: Citrate_synt; pfam00285 984892002971 active site 984892002972 citrylCoA binding site [chemical binding]; other site 984892002973 oxalacetate/citrate binding site [chemical binding]; other site 984892002974 coenzyme A binding site [chemical binding]; other site 984892002975 catalytic triad [active] 984892002976 isocitrate dehydrogenase; Reviewed; Region: PRK07006 984892002977 isocitrate dehydrogenase; Validated; Region: PRK07362 984892002978 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 984892002979 Transposase; Region: DDE_Tnp_ISL3; pfam01610 984892002980 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892002981 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 984892002982 active site 984892002983 phosphorylation site [posttranslational modification] 984892002984 intermolecular recognition site; other site 984892002985 dimerization interface [polypeptide binding]; other site 984892002986 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 984892002987 DNA binding site [nucleotide binding] 984892002988 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 984892002989 dimerization interface [polypeptide binding]; other site 984892002990 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 984892002991 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 984892002992 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 984892002993 dimer interface [polypeptide binding]; other site 984892002994 phosphorylation site [posttranslational modification] 984892002995 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 984892002996 ATP binding site [chemical binding]; other site 984892002997 Mg2+ binding site [ion binding]; other site 984892002998 G-X-G motif; other site 984892002999 DNA polymerase I; Provisional; Region: PRK05755 984892003000 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 984892003001 active site 984892003002 metal binding site 1 [ion binding]; metal-binding site 984892003003 putative 5' ssDNA interaction site; other site 984892003004 metal binding site 3; metal-binding site 984892003005 metal binding site 2 [ion binding]; metal-binding site 984892003006 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 984892003007 putative DNA binding site [nucleotide binding]; other site 984892003008 putative metal binding site [ion binding]; other site 984892003009 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 984892003010 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 984892003011 active site 984892003012 DNA binding site [nucleotide binding] 984892003013 catalytic site [active] 984892003014 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 984892003015 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 984892003016 DNA binding site [nucleotide binding] 984892003017 catalytic residue [active] 984892003018 H2TH interface [polypeptide binding]; other site 984892003019 putative catalytic residues [active] 984892003020 turnover-facilitating residue; other site 984892003021 intercalation triad [nucleotide binding]; other site 984892003022 8OG recognition residue [nucleotide binding]; other site 984892003023 putative reading head residues; other site 984892003024 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 984892003025 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 984892003026 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 984892003027 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 984892003028 CoA-binding site [chemical binding]; other site 984892003029 ATP-binding [chemical binding]; other site 984892003030 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 984892003031 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 984892003032 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 984892003033 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 984892003034 ATP cone domain; Region: ATP-cone; pfam03477 984892003035 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 984892003036 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 984892003037 primosomal protein DnaI; Reviewed; Region: PRK08939 984892003038 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 984892003039 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 984892003040 Walker A motif; other site 984892003041 ATP binding site [chemical binding]; other site 984892003042 Walker B motif; other site 984892003043 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 984892003044 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 984892003045 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 984892003046 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 984892003047 active site 984892003048 dimer interface [polypeptide binding]; other site 984892003049 motif 1; other site 984892003050 motif 2; other site 984892003051 motif 3; other site 984892003052 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 984892003053 anticodon binding site; other site 984892003054 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 984892003055 Ribosomal protein L20 leader; SPSE_1121 984892003056 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 984892003057 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 984892003058 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 984892003059 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 984892003060 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 984892003061 23S rRNA binding site [nucleotide binding]; other site 984892003062 L21 binding site [polypeptide binding]; other site 984892003063 L13 binding site [polypeptide binding]; other site 984892003064 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 984892003065 trigger factor; Provisional; Region: tig; PRK01490 984892003066 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984892003067 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 984892003068 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 984892003069 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 984892003070 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 984892003071 Walker A motif; other site 984892003072 ATP binding site [chemical binding]; other site 984892003073 Walker B motif; other site 984892003074 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 984892003075 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 984892003076 G1 box; other site 984892003077 GTP/Mg2+ binding site [chemical binding]; other site 984892003078 Switch I region; other site 984892003079 G2 box; other site 984892003080 G3 box; other site 984892003081 Switch II region; other site 984892003082 G4 box; other site 984892003083 G5 box; other site 984892003084 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 984892003085 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 984892003086 tRNA; other site 984892003087 putative tRNA binding site [nucleotide binding]; other site 984892003088 putative NADP binding site [chemical binding]; other site 984892003089 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 984892003090 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 984892003091 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 984892003092 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 984892003093 domain interfaces; other site 984892003094 active site 984892003095 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 984892003096 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 984892003097 active site 984892003098 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 984892003099 dimer interface [polypeptide binding]; other site 984892003100 active site 984892003101 Schiff base residues; other site 984892003102 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 984892003103 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 984892003104 inhibitor-cofactor binding pocket; inhibition site 984892003105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892003106 catalytic residue [active] 984892003107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 984892003108 Transposase; Region: DDE_Tnp_ISL3; pfam01610 984892003109 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 984892003110 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 984892003111 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 984892003112 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 984892003113 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 984892003114 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984892003115 active site 984892003116 HIGH motif; other site 984892003117 nucleotide binding site [chemical binding]; other site 984892003118 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984892003119 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 984892003120 active site 984892003121 KMSKS motif; other site 984892003122 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 984892003123 tRNA binding surface [nucleotide binding]; other site 984892003124 anticodon binding site; other site 984892003125 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 984892003126 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 984892003127 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984892003128 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984892003129 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 984892003130 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 984892003131 hypothetical protein; Reviewed; Region: PRK00024 984892003132 Ribosomal protein L21 leader; SPSE_1144 984892003133 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 984892003134 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 984892003135 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 984892003136 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 984892003137 GTPase CgtA; Reviewed; Region: obgE; PRK12297 984892003138 GTP1/OBG; Region: GTP1_OBG; pfam01018 984892003139 Obg GTPase; Region: Obg; cd01898 984892003140 G1 box; other site 984892003141 GTP/Mg2+ binding site [chemical binding]; other site 984892003142 Switch I region; other site 984892003143 G2 box; other site 984892003144 G3 box; other site 984892003145 Switch II region; other site 984892003146 G4 box; other site 984892003147 G5 box; other site 984892003148 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 984892003149 hypothetical protein; Provisional; Region: PRK04435 984892003150 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 984892003151 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 984892003152 RuvA N terminal domain; Region: RuvA_N; pfam01330 984892003153 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 984892003154 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 984892003155 Walker A motif; other site 984892003156 ATP binding site [chemical binding]; other site 984892003157 Walker B motif; other site 984892003158 arginine finger; other site 984892003159 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 984892003160 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 984892003161 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 984892003162 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 984892003163 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 984892003164 Preprotein translocase subunit; Region: YajC; pfam02699 984892003165 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 984892003166 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 984892003167 Protein export membrane protein; Region: SecD_SecF; cl14618 984892003168 Protein export membrane protein; Region: SecD_SecF; pfam02355 984892003169 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 984892003170 DHH family; Region: DHH; pfam01368 984892003171 DHHA1 domain; Region: DHHA1; pfam02272 984892003172 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 984892003173 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892003174 active site 984892003175 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 984892003176 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984892003177 Zn2+ binding site [ion binding]; other site 984892003178 Mg2+ binding site [ion binding]; other site 984892003179 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 984892003180 synthetase active site [active] 984892003181 NTP binding site [chemical binding]; other site 984892003182 metal binding site [ion binding]; metal-binding site 984892003183 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 984892003184 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 984892003185 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 984892003186 putative active site [active] 984892003187 dimerization interface [polypeptide binding]; other site 984892003188 putative tRNAtyr binding site [nucleotide binding]; other site 984892003189 Bacterial SH3 domain homologues; Region: SH3b; smart00287 984892003190 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 984892003191 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 984892003192 active site 984892003193 metal binding site [ion binding]; metal-binding site 984892003194 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 984892003195 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 984892003196 dimer interface [polypeptide binding]; other site 984892003197 motif 1; other site 984892003198 active site 984892003199 motif 2; other site 984892003200 motif 3; other site 984892003201 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 984892003202 anticodon binding site; other site 984892003203 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 984892003204 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 984892003205 dimer interface [polypeptide binding]; other site 984892003206 anticodon binding site; other site 984892003207 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 984892003208 homodimer interface [polypeptide binding]; other site 984892003209 motif 1; other site 984892003210 active site 984892003211 motif 2; other site 984892003212 GAD domain; Region: GAD; pfam02938 984892003213 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 984892003214 motif 3; other site 984892003215 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 984892003216 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 984892003217 putative ATP binding site [chemical binding]; other site 984892003218 putative substrate interface [chemical binding]; other site 984892003219 recombination factor protein RarA; Reviewed; Region: PRK13342 984892003220 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 984892003221 Walker A motif; other site 984892003222 ATP binding site [chemical binding]; other site 984892003223 Walker B motif; other site 984892003224 arginine finger; other site 984892003225 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 984892003226 Predicted transcriptional regulator [Transcription]; Region: COG1959 984892003227 Transcriptional regulator; Region: Rrf2; pfam02082 984892003228 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 984892003229 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 984892003230 active site 984892003231 catalytic tetrad [active] 984892003232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 984892003233 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 984892003234 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 984892003235 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 984892003236 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 984892003237 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892003238 catalytic residue [active] 984892003239 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 984892003240 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 984892003241 TPR repeat; Region: TPR_11; pfam13414 984892003242 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 984892003243 binding surface 984892003244 TPR motif; other site 984892003245 TPR repeat; Region: TPR_11; pfam13414 984892003246 TPR repeat; Region: TPR_11; pfam13414 984892003247 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 984892003248 TPR motif; other site 984892003249 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 984892003250 AAA domain; Region: AAA_30; pfam13604 984892003251 Family description; Region: UvrD_C_2; pfam13538 984892003252 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 984892003253 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 984892003254 motif 1; other site 984892003255 active site 984892003256 motif 2; other site 984892003257 motif 3; other site 984892003258 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 984892003259 DHHA1 domain; Region: DHHA1; pfam02272 984892003260 hypothetical protein; Provisional; Region: PRK05473 984892003261 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 984892003262 hypothetical protein; Provisional; Region: PRK13678 984892003263 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 984892003264 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 984892003265 S-adenosylmethionine binding site [chemical binding]; other site 984892003266 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 984892003267 Peptidase family U32; Region: Peptidase_U32; pfam01136 984892003268 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 984892003269 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 984892003270 Peptidase family U32; Region: Peptidase_U32; pfam01136 984892003271 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 984892003272 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 984892003273 Sugar specificity; other site 984892003274 Pyrimidine base specificity; other site 984892003275 ATP-binding site [chemical binding]; other site 984892003276 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 984892003277 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 984892003278 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 984892003279 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 984892003280 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 984892003281 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 984892003282 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 984892003283 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 984892003284 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 984892003285 carboxyltransferase (CT) interaction site; other site 984892003286 biotinylation site [posttranslational modification]; other site 984892003287 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 984892003288 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984892003289 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984892003290 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 984892003291 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 984892003292 putative active site [active] 984892003293 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 984892003294 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 984892003295 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 984892003296 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 984892003297 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 984892003298 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 984892003299 active site 984892003300 motif I; other site 984892003301 motif II; other site 984892003302 GTPase YqeH; Provisional; Region: PRK13796 984892003303 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 984892003304 GTP/Mg2+ binding site [chemical binding]; other site 984892003305 G4 box; other site 984892003306 G5 box; other site 984892003307 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 984892003308 G1 box; other site 984892003309 Switch I region; other site 984892003310 G2 box; other site 984892003311 G3 box; other site 984892003312 Switch II region; other site 984892003313 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 984892003314 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 984892003315 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 984892003316 shikimate binding site; other site 984892003317 NAD(P) binding site [chemical binding]; other site 984892003318 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 984892003319 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 984892003320 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 984892003321 active site 984892003322 (T/H)XGH motif; other site 984892003323 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984892003324 Zn2+ binding site [ion binding]; other site 984892003325 Mg2+ binding site [ion binding]; other site 984892003326 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 984892003327 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 984892003328 S-adenosylmethionine binding site [chemical binding]; other site 984892003329 SLBB domain; Region: SLBB; pfam10531 984892003330 comEA protein; Region: comE; TIGR01259 984892003331 Helix-hairpin-helix motif; Region: HHH; pfam00633 984892003332 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 984892003333 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 984892003334 catalytic motif [active] 984892003335 Zn binding site [ion binding]; other site 984892003336 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 984892003337 Competence protein; Region: Competence; pfam03772 984892003338 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 984892003339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 984892003340 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 984892003341 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 984892003342 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 984892003343 GTP-binding protein LepA; Provisional; Region: PRK05433 984892003344 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 984892003345 G1 box; other site 984892003346 putative GEF interaction site [polypeptide binding]; other site 984892003347 GTP/Mg2+ binding site [chemical binding]; other site 984892003348 Switch I region; other site 984892003349 G2 box; other site 984892003350 G3 box; other site 984892003351 Switch II region; other site 984892003352 G4 box; other site 984892003353 G5 box; other site 984892003354 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 984892003355 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 984892003356 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 984892003357 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 984892003358 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 984892003359 FeS/SAM binding site; other site 984892003360 HemN C-terminal domain; Region: HemN_C; pfam06969 984892003361 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 984892003362 GrpE; Region: GrpE; pfam01025 984892003363 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 984892003364 dimer interface [polypeptide binding]; other site 984892003365 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 984892003366 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 984892003367 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 984892003368 nucleotide binding site [chemical binding]; other site 984892003369 NEF interaction site [polypeptide binding]; other site 984892003370 SBD interface [polypeptide binding]; other site 984892003371 chaperone protein DnaJ; Provisional; Region: PRK14280 984892003372 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 984892003373 HSP70 interaction site [polypeptide binding]; other site 984892003374 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 984892003375 substrate binding site [polypeptide binding]; other site 984892003376 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 984892003377 Zn binding sites [ion binding]; other site 984892003378 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 984892003379 dimer interface [polypeptide binding]; other site 984892003380 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 984892003381 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 984892003382 S-adenosylmethionine binding site [chemical binding]; other site 984892003383 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 984892003384 RNA methyltransferase, RsmE family; Region: TIGR00046 984892003385 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 984892003386 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 984892003387 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 984892003388 FeS/SAM binding site; other site 984892003389 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 984892003390 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 984892003391 hypothetical protein; Provisional; Region: PRK13665 984892003392 peptide chain release factor 1; Region: prfA; TIGR00019 984892003393 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 984892003394 PhoH-like protein; Region: PhoH; pfam02562 984892003395 metal-binding heat shock protein; Provisional; Region: PRK00016 984892003396 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 984892003397 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 984892003398 active site 984892003399 catalytic motif [active] 984892003400 Zn binding site [ion binding]; other site 984892003401 GTPase Era; Reviewed; Region: era; PRK00089 984892003402 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 984892003403 G1 box; other site 984892003404 GTP/Mg2+ binding site [chemical binding]; other site 984892003405 Switch I region; other site 984892003406 G2 box; other site 984892003407 Switch II region; other site 984892003408 G3 box; other site 984892003409 G4 box; other site 984892003410 G5 box; other site 984892003411 KH domain; Region: KH_2; pfam07650 984892003412 Recombination protein O N terminal; Region: RecO_N; pfam11967 984892003413 DNA repair protein RecO; Region: reco; TIGR00613 984892003414 Recombination protein O C terminal; Region: RecO_C; pfam02565 984892003415 glycyl-tRNA synthetase; Provisional; Region: PRK04173 984892003416 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 984892003417 motif 1; other site 984892003418 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 984892003419 active site 984892003420 motif 2; other site 984892003421 motif 3; other site 984892003422 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 984892003423 anticodon binding site; other site 984892003424 FOG: CBS domain [General function prediction only]; Region: COG0517 984892003425 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 984892003426 PEP synthetase regulatory protein; Provisional; Region: PRK05339 984892003427 DNA primase, catalytic core; Region: dnaG; TIGR01391 984892003428 CHC2 zinc finger; Region: zf-CHC2; pfam01807 984892003429 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 984892003430 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 984892003431 active site 984892003432 metal binding site [ion binding]; metal-binding site 984892003433 interdomain interaction site; other site 984892003434 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 984892003435 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 984892003436 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 984892003437 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984892003438 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 984892003439 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 984892003440 DNA binding residues [nucleotide binding] 984892003441 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 984892003442 Family of unknown function (DUF633); Region: DUF633; pfam04816 984892003443 Uncharacterized conserved protein [Function unknown]; Region: COG0327 984892003444 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 984892003445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 984892003446 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 984892003447 Uncharacterized conserved protein [Function unknown]; Region: COG0327 984892003448 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 984892003449 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 984892003450 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 984892003451 DEAD-like helicases superfamily; Region: DEXDc; smart00487 984892003452 ATP binding site [chemical binding]; other site 984892003453 putative Mg++ binding site [ion binding]; other site 984892003454 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 984892003455 nucleotide binding region [chemical binding]; other site 984892003456 ATP-binding site [chemical binding]; other site 984892003457 endonuclease IV; Provisional; Region: PRK01060 984892003458 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 984892003459 AP (apurinic/apyrimidinic) site pocket; other site 984892003460 DNA interaction; other site 984892003461 Metal-binding active site; metal-binding site 984892003462 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 984892003463 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 984892003464 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 984892003465 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 984892003466 ABC-ATPase subunit interface; other site 984892003467 dimer interface [polypeptide binding]; other site 984892003468 putative PBP binding regions; other site 984892003469 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 984892003470 metal binding site 2 [ion binding]; metal-binding site 984892003471 putative DNA binding helix; other site 984892003472 metal binding site 1 [ion binding]; metal-binding site 984892003473 dimer interface [polypeptide binding]; other site 984892003474 structural Zn2+ binding site [ion binding]; other site 984892003475 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 984892003476 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 984892003477 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 984892003478 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 984892003479 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 984892003480 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 984892003481 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 984892003482 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 984892003483 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 984892003484 PBP superfamily domain; Region: PBP_like_2; cl17296 984892003485 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 984892003486 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 984892003487 dimer interface [polypeptide binding]; other site 984892003488 conserved gate region; other site 984892003489 putative PBP binding loops; other site 984892003490 ABC-ATPase subunit interface; other site 984892003491 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 984892003492 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 984892003493 dimer interface [polypeptide binding]; other site 984892003494 conserved gate region; other site 984892003495 putative PBP binding loops; other site 984892003496 ABC-ATPase subunit interface; other site 984892003497 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 984892003498 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 984892003499 Walker A/P-loop; other site 984892003500 ATP binding site [chemical binding]; other site 984892003501 Q-loop/lid; other site 984892003502 ABC transporter signature motif; other site 984892003503 Walker B; other site 984892003504 D-loop; other site 984892003505 H-loop/switch region; other site 984892003506 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 984892003507 PhoU domain; Region: PhoU; pfam01895 984892003508 PhoU domain; Region: PhoU; pfam01895 984892003509 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 984892003510 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 984892003511 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 984892003512 Rhomboid family; Region: Rhomboid; pfam01694 984892003513 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 984892003514 binding surface 984892003515 TPR motif; other site 984892003516 TPR repeat; Region: TPR_11; pfam13414 984892003517 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 984892003518 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 984892003519 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 984892003520 Uncharacterized conserved protein [Function unknown]; Region: COG0011 984892003521 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 984892003522 Type II/IV secretion system protein; Region: T2SE; pfam00437 984892003523 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 984892003524 Walker A motif; other site 984892003525 ATP binding site [chemical binding]; other site 984892003526 Walker B motif; other site 984892003527 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 984892003528 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 984892003529 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 984892003530 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 984892003531 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 984892003532 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 984892003533 ADP binding site [chemical binding]; other site 984892003534 magnesium binding site [ion binding]; other site 984892003535 putative shikimate binding site; other site 984892003536 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 984892003537 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 984892003538 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 984892003539 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 984892003540 tetramer interface [polypeptide binding]; other site 984892003541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892003542 catalytic residue [active] 984892003543 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 984892003544 tetramer interface [polypeptide binding]; other site 984892003545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892003546 catalytic residue [active] 984892003547 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 984892003548 active site residue [active] 984892003549 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 984892003550 phosphodiesterase; Provisional; Region: PRK12704 984892003551 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 984892003552 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 984892003553 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 984892003554 active site 984892003555 elongation factor P; Validated; Region: PRK00529 984892003556 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 984892003557 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 984892003558 RNA binding site [nucleotide binding]; other site 984892003559 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 984892003560 RNA binding site [nucleotide binding]; other site 984892003561 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 984892003562 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 984892003563 carboxyltransferase (CT) interaction site; other site 984892003564 biotinylation site [posttranslational modification]; other site 984892003565 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 984892003566 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984892003567 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 984892003568 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 984892003569 Asp23 family; Region: Asp23; pfam03780 984892003570 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 984892003571 putative RNA binding site [nucleotide binding]; other site 984892003572 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 984892003573 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 984892003574 generic binding surface II; other site 984892003575 generic binding surface I; other site 984892003576 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 984892003577 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 984892003578 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 984892003579 substrate binding pocket [chemical binding]; other site 984892003580 chain length determination region; other site 984892003581 substrate-Mg2+ binding site; other site 984892003582 catalytic residues [active] 984892003583 aspartate-rich region 1; other site 984892003584 active site lid residues [active] 984892003585 aspartate-rich region 2; other site 984892003586 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 984892003587 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 984892003588 TPP-binding site; other site 984892003589 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 984892003590 PYR/PP interface [polypeptide binding]; other site 984892003591 dimer interface [polypeptide binding]; other site 984892003592 TPP binding site [chemical binding]; other site 984892003593 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984892003594 arginine repressor; Provisional; Region: PRK04280 984892003595 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 984892003596 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 984892003597 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 984892003598 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 984892003599 Walker A/P-loop; other site 984892003600 ATP binding site [chemical binding]; other site 984892003601 Q-loop/lid; other site 984892003602 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 984892003603 ABC transporter signature motif; other site 984892003604 Walker B; other site 984892003605 D-loop; other site 984892003606 H-loop/switch region; other site 984892003607 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 984892003608 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 984892003609 nucleotide binding site [chemical binding]; other site 984892003610 Acetokinase family; Region: Acetate_kinase; cl17229 984892003611 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 984892003612 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 984892003613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892003614 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984892003615 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 984892003616 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 984892003617 tetramer interface [polypeptide binding]; other site 984892003618 TPP-binding site [chemical binding]; other site 984892003619 heterodimer interface [polypeptide binding]; other site 984892003620 phosphorylation loop region [posttranslational modification] 984892003621 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 984892003622 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 984892003623 alpha subunit interface [polypeptide binding]; other site 984892003624 TPP binding site [chemical binding]; other site 984892003625 heterodimer interface [polypeptide binding]; other site 984892003626 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984892003627 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 984892003628 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 984892003629 E3 interaction surface; other site 984892003630 lipoyl attachment site [posttranslational modification]; other site 984892003631 e3 binding domain; Region: E3_binding; pfam02817 984892003632 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984892003633 Disulphide isomerase; Region: Disulph_isomer; pfam06491 984892003634 Predicted membrane protein [Function unknown]; Region: COG4129 984892003635 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 984892003636 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 984892003637 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 984892003638 peptidase T-like protein; Region: PepT-like; TIGR01883 984892003639 metal binding site [ion binding]; metal-binding site 984892003640 putative dimer interface [polypeptide binding]; other site 984892003641 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 984892003642 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 984892003643 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 984892003644 H+ Antiporter protein; Region: 2A0121; TIGR00900 984892003645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 984892003646 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 984892003647 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 984892003648 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 984892003649 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 984892003650 ribonuclease Z; Region: RNase_Z; TIGR02651 984892003651 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 984892003652 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 984892003653 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 984892003654 classical (c) SDRs; Region: SDR_c; cd05233 984892003655 NAD(P) binding site [chemical binding]; other site 984892003656 active site 984892003657 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 984892003658 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 984892003659 active site 984892003660 catalytic tetrad [active] 984892003661 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 984892003662 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 984892003663 dimer interface [polypeptide binding]; other site 984892003664 ADP-ribose binding site [chemical binding]; other site 984892003665 active site 984892003666 nudix motif; other site 984892003667 metal binding site [ion binding]; metal-binding site 984892003668 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 984892003669 metal binding site 2 [ion binding]; metal-binding site 984892003670 putative DNA binding helix; other site 984892003671 metal binding site 1 [ion binding]; metal-binding site 984892003672 dimer interface [polypeptide binding]; other site 984892003673 structural Zn2+ binding site [ion binding]; other site 984892003674 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 984892003675 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 984892003676 active site 984892003677 Int/Topo IB signature motif; other site 984892003678 Domain of unknown function (DUF309); Region: DUF309; cl00667 984892003679 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 984892003680 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 984892003681 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 984892003682 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 984892003683 RNA binding surface [nucleotide binding]; other site 984892003684 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 984892003685 active site 984892003686 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892003687 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 984892003688 active site 984892003689 phosphorylation site [posttranslational modification] 984892003690 intermolecular recognition site; other site 984892003691 dimerization interface [polypeptide binding]; other site 984892003692 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 984892003693 DNA binding site [nucleotide binding] 984892003694 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 984892003695 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 984892003696 dimerization interface [polypeptide binding]; other site 984892003697 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 984892003698 dimer interface [polypeptide binding]; other site 984892003699 phosphorylation site [posttranslational modification] 984892003700 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 984892003701 ATP binding site [chemical binding]; other site 984892003702 Mg2+ binding site [ion binding]; other site 984892003703 G-X-G motif; other site 984892003704 Predicted membrane protein [Function unknown]; Region: COG3601 984892003705 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 984892003706 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 984892003707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 984892003708 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 984892003709 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 984892003710 ATP binding site [chemical binding]; other site 984892003711 putative Mg++ binding site [ion binding]; other site 984892003712 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 984892003713 nucleotide binding region [chemical binding]; other site 984892003714 ATP-binding site [chemical binding]; other site 984892003715 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892003716 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 984892003717 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 984892003718 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892003719 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 984892003720 active site 984892003721 homotetramer interface [polypeptide binding]; other site 984892003722 homodimer interface [polypeptide binding]; other site 984892003723 cytidylate kinase; Provisional; Region: cmk; PRK00023 984892003724 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 984892003725 CMP-binding site; other site 984892003726 The sites determining sugar specificity; other site 984892003727 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 984892003728 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 984892003729 RNA binding site [nucleotide binding]; other site 984892003730 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 984892003731 RNA binding site [nucleotide binding]; other site 984892003732 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 984892003733 RNA binding site [nucleotide binding]; other site 984892003734 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 984892003735 RNA binding site [nucleotide binding]; other site 984892003736 GTP-binding protein Der; Reviewed; Region: PRK00093 984892003737 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 984892003738 G1 box; other site 984892003739 GTP/Mg2+ binding site [chemical binding]; other site 984892003740 Switch I region; other site 984892003741 G2 box; other site 984892003742 Switch II region; other site 984892003743 G3 box; other site 984892003744 G4 box; other site 984892003745 G5 box; other site 984892003746 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 984892003747 G1 box; other site 984892003748 GTP/Mg2+ binding site [chemical binding]; other site 984892003749 Switch I region; other site 984892003750 G2 box; other site 984892003751 G3 box; other site 984892003752 Switch II region; other site 984892003753 G4 box; other site 984892003754 G5 box; other site 984892003755 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 984892003756 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 984892003757 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 984892003758 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 984892003759 IHF dimer interface [polypeptide binding]; other site 984892003760 IHF - DNA interface [nucleotide binding]; other site 984892003761 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 984892003762 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 984892003763 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 984892003764 S-adenosylmethionine binding site [chemical binding]; other site 984892003765 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 984892003766 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 984892003767 substrate binding pocket [chemical binding]; other site 984892003768 chain length determination region; other site 984892003769 substrate-Mg2+ binding site; other site 984892003770 catalytic residues [active] 984892003771 aspartate-rich region 1; other site 984892003772 active site lid residues [active] 984892003773 aspartate-rich region 2; other site 984892003774 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 984892003775 active site 984892003776 multimer interface [polypeptide binding]; other site 984892003777 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 984892003778 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 984892003779 Tetramer interface [polypeptide binding]; other site 984892003780 active site 984892003781 FMN-binding site [chemical binding]; other site 984892003782 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 984892003783 active site 984892003784 dimer interface [polypeptide binding]; other site 984892003785 metal binding site [ion binding]; metal-binding site 984892003786 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 984892003787 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 984892003788 hinge; other site 984892003789 active site 984892003790 TPR repeat; Region: TPR_11; pfam13414 984892003791 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 984892003792 binding surface 984892003793 TPR motif; other site 984892003794 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 984892003795 TPR motif; other site 984892003796 binding surface 984892003797 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 984892003798 binding surface 984892003799 TPR motif; other site 984892003800 Uncharacterized conserved protein [Function unknown]; Region: COG5582 984892003801 UPF0302 domain; Region: UPF0302; pfam08864 984892003802 Protein of unknown function (DUF1405); Region: DUF1405; pfam07187 984892003803 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 984892003804 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 984892003805 homodimer interface [polypeptide binding]; other site 984892003806 metal binding site [ion binding]; metal-binding site 984892003807 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 984892003808 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 984892003809 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 984892003810 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 984892003811 active site 984892003812 NTP binding site [chemical binding]; other site 984892003813 metal binding triad [ion binding]; metal-binding site 984892003814 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 984892003815 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 984892003816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892003817 DNA-binding site [nucleotide binding]; DNA binding site 984892003818 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 984892003819 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 984892003820 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 984892003821 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 984892003822 active site 984892003823 catalytic site [active] 984892003824 substrate binding site [chemical binding]; other site 984892003825 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 984892003826 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 984892003827 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 984892003828 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 984892003829 putative dimer interface [polypeptide binding]; other site 984892003830 putative anticodon binding site; other site 984892003831 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 984892003832 homodimer interface [polypeptide binding]; other site 984892003833 motif 1; other site 984892003834 motif 2; other site 984892003835 active site 984892003836 motif 3; other site 984892003837 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 984892003838 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 984892003839 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 984892003840 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 984892003841 minor groove reading motif; other site 984892003842 helix-hairpin-helix signature motif; other site 984892003843 substrate binding pocket [chemical binding]; other site 984892003844 active site 984892003845 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 984892003846 Transglycosylase; Region: Transgly; pfam00912 984892003847 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 984892003848 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 984892003849 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 984892003850 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 984892003851 hypothetical protein; Provisional; Region: PRK13660 984892003852 cell division protein GpsB; Provisional; Region: PRK14127 984892003853 DivIVA domain; Region: DivI1A_domain; TIGR03544 984892003854 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 984892003855 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 984892003856 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 984892003857 Predicted permeases [General function prediction only]; Region: RarD; COG2962 984892003858 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 984892003859 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 984892003860 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 984892003861 Dynamin family; Region: Dynamin_N; pfam00350 984892003862 G1 box; other site 984892003863 G1 box; other site 984892003864 GTP/Mg2+ binding site [chemical binding]; other site 984892003865 GTP/Mg2+ binding site [chemical binding]; other site 984892003866 G2 box; other site 984892003867 Switch I region; other site 984892003868 G3 box; other site 984892003869 Switch II region; other site 984892003870 G4 box; other site 984892003871 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 984892003872 GTP/Mg2+ binding site [chemical binding]; other site 984892003873 G5 box; other site 984892003874 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 984892003875 Dynamin family; Region: Dynamin_N; pfam00350 984892003876 G1 box; other site 984892003877 G1 box; other site 984892003878 GTP/Mg2+ binding site [chemical binding]; other site 984892003879 G2 box; other site 984892003880 Switch I region; other site 984892003881 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 984892003882 G3 box; other site 984892003883 Switch II region; other site 984892003884 GTP/Mg2+ binding site [chemical binding]; other site 984892003885 G4 box; other site 984892003886 G5 box; other site 984892003887 5'-3' exonuclease; Region: 53EXOc; smart00475 984892003888 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 984892003889 active site 984892003890 metal binding site 1 [ion binding]; metal-binding site 984892003891 putative 5' ssDNA interaction site; other site 984892003892 metal binding site 3; metal-binding site 984892003893 metal binding site 2 [ion binding]; metal-binding site 984892003894 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 984892003895 putative DNA binding site [nucleotide binding]; other site 984892003896 putative metal binding site [ion binding]; other site 984892003897 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 984892003898 RNA/DNA hybrid binding site [nucleotide binding]; other site 984892003899 active site 984892003900 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 984892003901 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 984892003902 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 984892003903 Virulence factor; Region: Virulence_fact; pfam13769 984892003904 HEAT repeats; Region: HEAT_2; pfam13646 984892003905 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 984892003906 thymidylate synthase; Region: thym_sym; TIGR03284 984892003907 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 984892003908 dimerization interface [polypeptide binding]; other site 984892003909 active site 984892003910 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 984892003911 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 984892003912 folate binding site [chemical binding]; other site 984892003913 NADP+ binding site [chemical binding]; other site 984892003914 EDD domain protein, DegV family; Region: DegV; TIGR00762 984892003915 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 984892003916 methionine sulfoxide reductase A; Provisional; Region: PRK13014 984892003917 methionine sulfoxide reductase B; Provisional; Region: PRK00222 984892003918 SelR domain; Region: SelR; pfam01641 984892003919 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 984892003920 HPr interaction site; other site 984892003921 glycerol kinase (GK) interaction site [polypeptide binding]; other site 984892003922 active site 984892003923 phosphorylation site [posttranslational modification] 984892003924 hypothetical protein; Provisional; Region: PRK13672 984892003925 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 984892003926 C-terminal peptidase (prc); Region: prc; TIGR00225 984892003927 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 984892003928 protein binding site [polypeptide binding]; other site 984892003929 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 984892003930 Catalytic dyad [active] 984892003931 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 984892003932 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 984892003933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892003934 Coenzyme A binding pocket [chemical binding]; other site 984892003935 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 984892003936 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 984892003937 active site 984892003938 homodimer interface [polypeptide binding]; other site 984892003939 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 984892003940 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 984892003941 active site 984892003942 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892003943 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 984892003944 active site 984892003945 phosphorylation site [posttranslational modification] 984892003946 intermolecular recognition site; other site 984892003947 dimerization interface [polypeptide binding]; other site 984892003948 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 984892003949 DNA binding site [nucleotide binding] 984892003950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984892003951 HAMP domain; Region: HAMP; pfam00672 984892003952 dimerization interface [polypeptide binding]; other site 984892003953 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 984892003954 dimer interface [polypeptide binding]; other site 984892003955 phosphorylation site [posttranslational modification] 984892003956 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 984892003957 ATP binding site [chemical binding]; other site 984892003958 Mg2+ binding site [ion binding]; other site 984892003959 G-X-G motif; other site 984892003960 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 984892003961 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 984892003962 TPP-binding site [chemical binding]; other site 984892003963 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 984892003964 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 984892003965 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 984892003966 E3 interaction surface; other site 984892003967 lipoyl attachment site [posttranslational modification]; other site 984892003968 e3 binding domain; Region: E3_binding; pfam02817 984892003969 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984892003970 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 984892003971 active site 984892003972 MoxR-like ATPases [General function prediction only]; Region: COG0714 984892003973 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 984892003974 Walker A motif; other site 984892003975 ATP binding site [chemical binding]; other site 984892003976 Walker B motif; other site 984892003977 arginine finger; other site 984892003978 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 984892003979 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 984892003980 metal ion-dependent adhesion site (MIDAS); other site 984892003981 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 984892003982 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 984892003983 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 984892003984 Acylphosphatase; Region: Acylphosphatase; cl00551 984892003985 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 984892003986 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 984892003987 DNA-binding site [nucleotide binding]; DNA binding site 984892003988 RNA-binding motif; other site 984892003989 diaminopimelate decarboxylase; Region: lysA; TIGR01048 984892003990 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 984892003991 active site 984892003992 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984892003993 substrate binding site [chemical binding]; other site 984892003994 catalytic residues [active] 984892003995 dimer interface [polypeptide binding]; other site 984892003996 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 984892003997 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 984892003998 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984892003999 catalytic residue [active] 984892004000 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 984892004001 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 984892004002 metal binding site [ion binding]; metal-binding site 984892004003 dimer interface [polypeptide binding]; other site 984892004004 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 984892004005 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 984892004006 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 984892004007 trimer interface [polypeptide binding]; other site 984892004008 active site 984892004009 substrate binding site [chemical binding]; other site 984892004010 CoA binding site [chemical binding]; other site 984892004011 dihydrodipicolinate reductase; Provisional; Region: PRK00048 984892004012 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 984892004013 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 984892004014 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 984892004015 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 984892004016 dimer interface [polypeptide binding]; other site 984892004017 active site 984892004018 catalytic residue [active] 984892004019 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 984892004020 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 984892004021 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 984892004022 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 984892004023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892004024 Walker A/P-loop; other site 984892004025 ATP binding site [chemical binding]; other site 984892004026 Q-loop/lid; other site 984892004027 ABC transporter signature motif; other site 984892004028 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892004029 Walker B; other site 984892004030 D-loop; other site 984892004031 H-loop/switch region; other site 984892004032 ABC transporter; Region: ABC_tran_2; pfam12848 984892004033 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892004034 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 984892004035 S1 domain; Region: S1_2; pfam13509 984892004036 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 984892004037 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 984892004038 Cna protein B-type domain; Region: Cna_B; pfam05738 984892004039 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 984892004040 oligoendopeptidase F; Region: pepF; TIGR00181 984892004041 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 984892004042 active site 984892004043 Zn binding site [ion binding]; other site 984892004044 FemAB family; Region: FemAB; pfam02388 984892004045 FemAB family; Region: FemAB; pfam02388 984892004046 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 984892004047 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 984892004048 putative oligomer interface [polypeptide binding]; other site 984892004049 putative active site [active] 984892004050 metal binding site [ion binding]; metal-binding site 984892004051 prephenate dehydrogenase; Validated; Region: PRK06545 984892004052 prephenate dehydrogenase; Validated; Region: PRK08507 984892004053 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 984892004054 DNA polymerase IV; Reviewed; Region: PRK03103 984892004055 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 984892004056 active site 984892004057 DNA binding site [nucleotide binding] 984892004058 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 984892004059 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 984892004060 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 984892004061 active site 1 [active] 984892004062 dimer interface [polypeptide binding]; other site 984892004063 hexamer interface [polypeptide binding]; other site 984892004064 active site 2 [active] 984892004065 Transcriptional regulator [Transcription]; Region: LytR; COG1316 984892004066 methionine sulfoxide reductase A; Provisional; Region: PRK14054 984892004067 Predicted integral membrane protein [Function unknown]; Region: COG0392 984892004068 Uncharacterized conserved protein [Function unknown]; Region: COG2898 984892004069 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 984892004070 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 984892004071 Domain of unknown function DUF20; Region: UPF0118; pfam01594 984892004072 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 984892004073 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 984892004074 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 984892004075 active site turn [active] 984892004076 phosphorylation site [posttranslational modification] 984892004077 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 984892004078 HPr interaction site; other site 984892004079 glycerol kinase (GK) interaction site [polypeptide binding]; other site 984892004080 active site 984892004081 phosphorylation site [posttranslational modification] 984892004082 CAT RNA binding domain; Region: CAT_RBD; pfam03123 984892004083 transcriptional antiterminator BglG; Provisional; Region: PRK09772 984892004084 PRD domain; Region: PRD; pfam00874 984892004085 PRD domain; Region: PRD; pfam00874 984892004086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 984892004087 Transposase; Region: DDE_Tnp_ISL3; pfam01610 984892004088 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 984892004089 amino acid carrier protein; Region: agcS; TIGR00835 984892004090 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 984892004091 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 984892004092 CAP-like domain; other site 984892004093 active site 984892004094 primary dimer interface [polypeptide binding]; other site 984892004095 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892004096 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984892004097 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 984892004098 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 984892004099 ATP binding site [chemical binding]; other site 984892004100 Mg2+ binding site [ion binding]; other site 984892004101 G-X-G motif; other site 984892004102 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 984892004103 anchoring element; other site 984892004104 dimer interface [polypeptide binding]; other site 984892004105 ATP binding site [chemical binding]; other site 984892004106 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 984892004107 active site 984892004108 putative metal-binding site [ion binding]; other site 984892004109 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 984892004110 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 984892004111 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 984892004112 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 984892004113 active site 984892004114 aconitate hydratase; Validated; Region: PRK09277 984892004115 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 984892004116 substrate binding site [chemical binding]; other site 984892004117 ligand binding site [chemical binding]; other site 984892004118 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 984892004119 substrate binding site [chemical binding]; other site 984892004120 BCCT family transporter; Region: BCCT; pfam02028 984892004121 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 984892004122 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 984892004123 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 984892004124 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 984892004125 Walker A/P-loop; other site 984892004126 ATP binding site [chemical binding]; other site 984892004127 Q-loop/lid; other site 984892004128 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 984892004129 ABC transporter signature motif; other site 984892004130 Walker B; other site 984892004131 D-loop; other site 984892004132 H-loop/switch region; other site 984892004133 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 984892004134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 984892004135 active site 984892004136 metal binding site [ion binding]; metal-binding site 984892004137 DNA binding site [nucleotide binding] 984892004138 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 984892004139 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892004140 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892004141 putative active site [active] 984892004142 putative NTP binding site [chemical binding]; other site 984892004143 putative nucleic acid binding site [nucleotide binding]; other site 984892004144 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892004145 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 984892004146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 984892004147 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 984892004148 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 984892004149 TPP-binding site [chemical binding]; other site 984892004150 dimer interface [polypeptide binding]; other site 984892004151 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 984892004152 PYR/PP interface [polypeptide binding]; other site 984892004153 dimer interface [polypeptide binding]; other site 984892004154 TPP binding site [chemical binding]; other site 984892004155 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984892004156 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 984892004157 LexA repressor; Validated; Region: PRK00215 984892004158 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 984892004159 putative DNA binding site [nucleotide binding]; other site 984892004160 putative Zn2+ binding site [ion binding]; other site 984892004161 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 984892004162 Catalytic site [active] 984892004163 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 984892004164 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 984892004165 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 984892004166 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 984892004167 active site 984892004168 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 984892004169 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 984892004170 lysine transporter; Provisional; Region: PRK10836 984892004171 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 984892004172 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 984892004173 motif II; other site 984892004174 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 984892004175 homoserine kinase; Provisional; Region: PRK01212 984892004176 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984892004177 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 984892004178 threonine synthase; Reviewed; Region: PRK06721 984892004179 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 984892004180 homodimer interface [polypeptide binding]; other site 984892004181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892004182 catalytic residue [active] 984892004183 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 984892004184 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 984892004185 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 984892004186 aspartate kinase; Reviewed; Region: PRK09034 984892004187 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 984892004188 putative catalytic residues [active] 984892004189 putative nucleotide binding site [chemical binding]; other site 984892004190 putative aspartate binding site [chemical binding]; other site 984892004191 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 984892004192 allosteric regulatory residue; other site 984892004193 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 984892004194 MarR family; Region: MarR_2; cl17246 984892004195 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 984892004196 Catalytic site; other site 984892004197 Staphylococcal nuclease homologues; Region: SNc; smart00318 984892004198 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 984892004199 Catalytic site; other site 984892004200 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 984892004201 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 984892004202 motif II; other site 984892004203 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892004204 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 984892004205 putative substrate translocation pore; other site 984892004206 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 984892004207 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 984892004208 active site 984892004209 catalytic site [active] 984892004210 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 984892004211 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 984892004212 Int/Topo IB signature motif; other site 984892004213 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 984892004214 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 984892004215 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 984892004216 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 984892004217 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 984892004218 DNA binding residues [nucleotide binding] 984892004219 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 984892004220 Aluminium resistance protein; Region: Alum_res; pfam06838 984892004221 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 984892004222 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 984892004223 HflX GTPase family; Region: HflX; cd01878 984892004224 G1 box; other site 984892004225 GTP/Mg2+ binding site [chemical binding]; other site 984892004226 Switch I region; other site 984892004227 G2 box; other site 984892004228 G3 box; other site 984892004229 Switch II region; other site 984892004230 G4 box; other site 984892004231 G5 box; other site 984892004232 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 984892004233 catalytic residues [active] 984892004234 dimer interface [polypeptide binding]; other site 984892004235 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 984892004236 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 984892004237 PGAP1-like protein; Region: PGAP1; pfam07819 984892004238 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 984892004239 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 984892004240 bacterial Hfq-like; Region: Hfq; cd01716 984892004241 hexamer interface [polypeptide binding]; other site 984892004242 Sm1 motif; other site 984892004243 RNA binding site [nucleotide binding]; other site 984892004244 Sm2 motif; other site 984892004245 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 984892004246 glycerol kinase; Provisional; Region: glpK; PRK00047 984892004247 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 984892004248 N- and C-terminal domain interface [polypeptide binding]; other site 984892004249 active site 984892004250 MgATP binding site [chemical binding]; other site 984892004251 catalytic site [active] 984892004252 metal binding site [ion binding]; metal-binding site 984892004253 glycerol binding site [chemical binding]; other site 984892004254 homotetramer interface [polypeptide binding]; other site 984892004255 homodimer interface [polypeptide binding]; other site 984892004256 FBP binding site [chemical binding]; other site 984892004257 protein IIAGlc interface [polypeptide binding]; other site 984892004258 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 984892004259 amphipathic channel; other site 984892004260 Asn-Pro-Ala signature motifs; other site 984892004261 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 984892004262 putative dimer interface [polypeptide binding]; other site 984892004263 catalytic triad [active] 984892004264 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 984892004265 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 984892004266 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 984892004267 ATP binding site [chemical binding]; other site 984892004268 Mg2+ binding site [ion binding]; other site 984892004269 G-X-G motif; other site 984892004270 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 984892004271 ATP binding site [chemical binding]; other site 984892004272 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 984892004273 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 984892004274 MutS domain I; Region: MutS_I; pfam01624 984892004275 MutS domain II; Region: MutS_II; pfam05188 984892004276 MutS domain III; Region: MutS_III; pfam05192 984892004277 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 984892004278 Walker A/P-loop; other site 984892004279 ATP binding site [chemical binding]; other site 984892004280 Q-loop/lid; other site 984892004281 ABC transporter signature motif; other site 984892004282 Walker B; other site 984892004283 D-loop; other site 984892004284 H-loop/switch region; other site 984892004285 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 984892004286 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 984892004287 Predicted membrane protein [Function unknown]; Region: COG4550 984892004288 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 984892004289 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 984892004290 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 984892004291 FeS/SAM binding site; other site 984892004292 TRAM domain; Region: TRAM; pfam01938 984892004293 Uncharacterized conserved protein [Function unknown]; Region: COG0011 984892004294 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 984892004295 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 984892004296 TPP-binding site [chemical binding]; other site 984892004297 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 984892004298 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 984892004299 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 984892004300 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 984892004301 dimer interface [polypeptide binding]; other site 984892004302 PYR/PP interface [polypeptide binding]; other site 984892004303 TPP binding site [chemical binding]; other site 984892004304 substrate binding site [chemical binding]; other site 984892004305 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 984892004306 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 984892004307 putative active site [active] 984892004308 metal binding site [ion binding]; metal-binding site 984892004309 homodimer binding site [polypeptide binding]; other site 984892004310 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 984892004311 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 984892004312 metal-binding site [ion binding] 984892004313 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 984892004314 Soluble P-type ATPase [General function prediction only]; Region: COG4087 984892004315 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 984892004316 dimerization interface [polypeptide binding]; other site 984892004317 putative DNA binding site [nucleotide binding]; other site 984892004318 putative Zn2+ binding site [ion binding]; other site 984892004319 phosphodiesterase; Provisional; Region: PRK12704 984892004320 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984892004321 Zn2+ binding site [ion binding]; other site 984892004322 Mg2+ binding site [ion binding]; other site 984892004323 recombinase A; Provisional; Region: recA; PRK09354 984892004324 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 984892004325 hexamer interface [polypeptide binding]; other site 984892004326 Walker A motif; other site 984892004327 ATP binding site [chemical binding]; other site 984892004328 Walker B motif; other site 984892004329 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 984892004330 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 984892004331 putative MPT binding site; other site 984892004332 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 984892004333 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 984892004334 non-specific DNA binding site [nucleotide binding]; other site 984892004335 salt bridge; other site 984892004336 sequence-specific DNA binding site [nucleotide binding]; other site 984892004337 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 984892004338 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 984892004339 classical (c) SDRs; Region: SDR_c; cd05233 984892004340 NAD(P) binding site [chemical binding]; other site 984892004341 active site 984892004342 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984892004343 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 984892004344 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984892004345 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984892004346 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984892004347 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 984892004348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 984892004349 DNA-binding site [nucleotide binding]; DNA binding site 984892004350 UTRA domain; Region: UTRA; pfam07702 984892004351 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 984892004352 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 984892004353 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 984892004354 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 984892004355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 984892004356 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 984892004357 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 984892004358 RNase E interface [polypeptide binding]; other site 984892004359 trimer interface [polypeptide binding]; other site 984892004360 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 984892004361 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 984892004362 RNase E interface [polypeptide binding]; other site 984892004363 trimer interface [polypeptide binding]; other site 984892004364 active site 984892004365 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 984892004366 putative nucleic acid binding region [nucleotide binding]; other site 984892004367 G-X-X-G motif; other site 984892004368 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 984892004369 RNA binding site [nucleotide binding]; other site 984892004370 domain interface; other site 984892004371 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 984892004372 16S/18S rRNA binding site [nucleotide binding]; other site 984892004373 S13e-L30e interaction site [polypeptide binding]; other site 984892004374 25S rRNA binding site [nucleotide binding]; other site 984892004375 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 984892004376 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 984892004377 active site 984892004378 Riboflavin kinase; Region: Flavokinase; smart00904 984892004379 tRNA pseudouridine synthase B; Provisional; Region: PRK14123 984892004380 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 984892004381 RNA binding site [nucleotide binding]; other site 984892004382 active site 984892004383 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 984892004384 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 984892004385 translation initiation factor IF-2; Region: IF-2; TIGR00487 984892004386 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 984892004387 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 984892004388 G1 box; other site 984892004389 putative GEF interaction site [polypeptide binding]; other site 984892004390 GTP/Mg2+ binding site [chemical binding]; other site 984892004391 Switch I region; other site 984892004392 G2 box; other site 984892004393 G3 box; other site 984892004394 Switch II region; other site 984892004395 G4 box; other site 984892004396 G5 box; other site 984892004397 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 984892004398 Translation-initiation factor 2; Region: IF-2; pfam11987 984892004399 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 984892004400 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 984892004401 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 984892004402 putative RNA binding cleft [nucleotide binding]; other site 984892004403 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 984892004404 NusA N-terminal domain; Region: NusA_N; pfam08529 984892004405 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 984892004406 RNA binding site [nucleotide binding]; other site 984892004407 homodimer interface [polypeptide binding]; other site 984892004408 NusA-like KH domain; Region: KH_5; pfam13184 984892004409 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 984892004410 G-X-X-G motif; other site 984892004411 ribosome maturation protein RimP; Reviewed; Region: PRK00092 984892004412 Sm and related proteins; Region: Sm_like; cl00259 984892004413 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 984892004414 putative oligomer interface [polypeptide binding]; other site 984892004415 putative RNA binding site [nucleotide binding]; other site 984892004416 DNA polymerase III PolC; Validated; Region: polC; PRK00448 984892004417 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 984892004418 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 984892004419 generic binding surface II; other site 984892004420 generic binding surface I; other site 984892004421 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 984892004422 active site 984892004423 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 984892004424 active site 984892004425 catalytic site [active] 984892004426 substrate binding site [chemical binding]; other site 984892004427 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 984892004428 prolyl-tRNA synthetase; Provisional; Region: PRK09194 984892004429 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 984892004430 dimer interface [polypeptide binding]; other site 984892004431 motif 1; other site 984892004432 active site 984892004433 motif 2; other site 984892004434 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 984892004435 putative deacylase active site [active] 984892004436 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 984892004437 active site 984892004438 motif 3; other site 984892004439 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 984892004440 anticodon binding site; other site 984892004441 RIP metalloprotease RseP; Region: TIGR00054 984892004442 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 984892004443 active site 984892004444 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 984892004445 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 984892004446 protein binding site [polypeptide binding]; other site 984892004447 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 984892004448 putative substrate binding region [chemical binding]; other site 984892004449 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 984892004450 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 984892004451 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 984892004452 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 984892004453 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 984892004454 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 984892004455 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 984892004456 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 984892004457 catalytic residue [active] 984892004458 putative FPP diphosphate binding site; other site 984892004459 putative FPP binding hydrophobic cleft; other site 984892004460 dimer interface [polypeptide binding]; other site 984892004461 putative IPP diphosphate binding site; other site 984892004462 ribosome recycling factor; Reviewed; Region: frr; PRK00083 984892004463 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 984892004464 hinge region; other site 984892004465 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 984892004466 putative nucleotide binding site [chemical binding]; other site 984892004467 uridine monophosphate binding site [chemical binding]; other site 984892004468 homohexameric interface [polypeptide binding]; other site 984892004469 elongation factor Ts; Provisional; Region: tsf; PRK09377 984892004470 UBA/TS-N domain; Region: UBA; pfam00627 984892004471 Elongation factor TS; Region: EF_TS; pfam00889 984892004472 Elongation factor TS; Region: EF_TS; pfam00889 984892004473 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 984892004474 rRNA interaction site [nucleotide binding]; other site 984892004475 S8 interaction site; other site 984892004476 putative laminin-1 binding site; other site 984892004477 transcriptional repressor CodY; Validated; Region: PRK04158 984892004478 CodY GAF-like domain; Region: CodY; pfam06018 984892004479 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 984892004480 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 984892004481 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 984892004482 Walker A motif; other site 984892004483 ATP binding site [chemical binding]; other site 984892004484 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 984892004485 Walker B motif; other site 984892004486 arginine finger; other site 984892004487 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 984892004488 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 984892004489 active site 984892004490 HslU subunit interaction site [polypeptide binding]; other site 984892004491 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 984892004492 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 984892004493 active site 984892004494 DNA binding site [nucleotide binding] 984892004495 Int/Topo IB signature motif; other site 984892004496 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 984892004497 Glucose inhibited division protein A; Region: GIDA; pfam01134 984892004498 DNA topoisomerase I; Validated; Region: PRK05582 984892004499 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 984892004500 active site 984892004501 interdomain interaction site; other site 984892004502 putative metal-binding site [ion binding]; other site 984892004503 nucleotide binding site [chemical binding]; other site 984892004504 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 984892004505 domain I; other site 984892004506 DNA binding groove [nucleotide binding] 984892004507 phosphate binding site [ion binding]; other site 984892004508 domain II; other site 984892004509 domain III; other site 984892004510 nucleotide binding site [chemical binding]; other site 984892004511 catalytic site [active] 984892004512 domain IV; other site 984892004513 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 984892004514 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 984892004515 DNA protecting protein DprA; Region: dprA; TIGR00732 984892004516 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 984892004517 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 984892004518 CoA binding domain; Region: CoA_binding; smart00881 984892004519 CoA-ligase; Region: Ligase_CoA; pfam00549 984892004520 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 984892004521 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 984892004522 CoA-ligase; Region: Ligase_CoA; pfam00549 984892004523 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 984892004524 RNA/DNA hybrid binding site [nucleotide binding]; other site 984892004525 active site 984892004526 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 984892004527 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 984892004528 GTP/Mg2+ binding site [chemical binding]; other site 984892004529 G4 box; other site 984892004530 G5 box; other site 984892004531 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 984892004532 G1 box; other site 984892004533 G1 box; other site 984892004534 GTP/Mg2+ binding site [chemical binding]; other site 984892004535 Switch I region; other site 984892004536 G2 box; other site 984892004537 G2 box; other site 984892004538 G3 box; other site 984892004539 G3 box; other site 984892004540 Switch II region; other site 984892004541 Switch II region; other site 984892004542 Predicted membrane protein [Function unknown]; Region: COG2246 984892004543 GtrA-like protein; Region: GtrA; pfam04138 984892004544 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 984892004545 Predicted membrane protein [Function unknown]; Region: COG4485 984892004546 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 984892004547 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 984892004548 Ribosomal protein L19 leader; SPSE_1548 984892004549 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 984892004550 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 984892004551 RimM N-terminal domain; Region: RimM; pfam01782 984892004552 PRC-barrel domain; Region: PRC; pfam05239 984892004553 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 984892004554 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 984892004555 H+ Antiporter protein; Region: 2A0121; TIGR00900 984892004556 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 984892004557 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892004558 putative substrate translocation pore; other site 984892004559 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 984892004560 putative active site; other site 984892004561 putative metal binding residues [ion binding]; other site 984892004562 signature motif; other site 984892004563 putative triphosphate binding site [ion binding]; other site 984892004564 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 984892004565 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 984892004566 non-specific DNA binding site [nucleotide binding]; other site 984892004567 salt bridge; other site 984892004568 sequence-specific DNA binding site [nucleotide binding]; other site 984892004569 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 984892004570 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 984892004571 signal recognition particle protein; Provisional; Region: PRK10867 984892004572 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 984892004573 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 984892004574 P loop; other site 984892004575 GTP binding site [chemical binding]; other site 984892004576 Signal peptide binding domain; Region: SRP_SPB; pfam02978 984892004577 putative DNA-binding protein; Validated; Region: PRK00118 984892004578 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 984892004579 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 984892004580 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 984892004581 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 984892004582 P loop; other site 984892004583 GTP binding site [chemical binding]; other site 984892004584 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 984892004585 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 984892004586 Walker A/P-loop; other site 984892004587 ATP binding site [chemical binding]; other site 984892004588 Q-loop/lid; other site 984892004589 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 984892004590 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 984892004591 ABC transporter signature motif; other site 984892004592 Walker B; other site 984892004593 D-loop; other site 984892004594 H-loop/switch region; other site 984892004595 ribonuclease III; Reviewed; Region: rnc; PRK00102 984892004596 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 984892004597 dimerization interface [polypeptide binding]; other site 984892004598 active site 984892004599 metal binding site [ion binding]; metal-binding site 984892004600 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 984892004601 dsRNA binding site [nucleotide binding]; other site 984892004602 acyl carrier protein; Provisional; Region: acpP; PRK00982 984892004603 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 984892004604 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 984892004605 NAD(P) binding site [chemical binding]; other site 984892004606 homotetramer interface [polypeptide binding]; other site 984892004607 homodimer interface [polypeptide binding]; other site 984892004608 active site 984892004609 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 984892004610 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 984892004611 putative phosphate acyltransferase; Provisional; Region: PRK05331 984892004612 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 984892004613 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 984892004614 active site 2 [active] 984892004615 active site 1 [active] 984892004616 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 984892004617 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 984892004618 generic binding surface II; other site 984892004619 ssDNA binding site; other site 984892004620 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 984892004621 ATP binding site [chemical binding]; other site 984892004622 putative Mg++ binding site [ion binding]; other site 984892004623 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 984892004624 nucleotide binding region [chemical binding]; other site 984892004625 ATP-binding site [chemical binding]; other site 984892004626 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 984892004627 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 984892004628 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 984892004629 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 984892004630 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 984892004631 putative L-serine binding site [chemical binding]; other site 984892004632 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 984892004633 DAK2 domain; Region: Dak2; pfam02734 984892004634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 984892004635 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 984892004636 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 984892004637 Thiamine pyrophosphokinase; Region: TPK; cd07995 984892004638 active site 984892004639 dimerization interface [polypeptide binding]; other site 984892004640 thiamine binding site [chemical binding]; other site 984892004641 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 984892004642 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 984892004643 substrate binding site [chemical binding]; other site 984892004644 hexamer interface [polypeptide binding]; other site 984892004645 metal binding site [ion binding]; metal-binding site 984892004646 GTPase RsgA; Reviewed; Region: PRK00098 984892004647 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 984892004648 RNA binding site [nucleotide binding]; other site 984892004649 homodimer interface [polypeptide binding]; other site 984892004650 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 984892004651 GTPase/Zn-binding domain interface [polypeptide binding]; other site 984892004652 GTP/Mg2+ binding site [chemical binding]; other site 984892004653 G4 box; other site 984892004654 G5 box; other site 984892004655 G1 box; other site 984892004656 Switch I region; other site 984892004657 G2 box; other site 984892004658 G3 box; other site 984892004659 Switch II region; other site 984892004660 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 984892004661 Cytochrome P450; Region: p450; cl12078 984892004662 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 984892004663 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 984892004664 active site 984892004665 ATP binding site [chemical binding]; other site 984892004666 substrate binding site [chemical binding]; other site 984892004667 activation loop (A-loop); other site 984892004668 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 984892004669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 984892004670 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 984892004671 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 984892004672 Protein phosphatase 2C; Region: PP2C; pfam00481 984892004673 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 984892004674 active site 984892004675 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 984892004676 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 984892004677 FeS/SAM binding site; other site 984892004678 16S rRNA methyltransferase B; Provisional; Region: PRK14902 984892004679 NusB family; Region: NusB; pfam01029 984892004680 putative RNA binding site [nucleotide binding]; other site 984892004681 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 984892004682 S-adenosylmethionine binding site [chemical binding]; other site 984892004683 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 984892004684 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 984892004685 putative active site [active] 984892004686 substrate binding site [chemical binding]; other site 984892004687 putative cosubstrate binding site; other site 984892004688 catalytic site [active] 984892004689 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 984892004690 substrate binding site [chemical binding]; other site 984892004691 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 984892004692 active site 984892004693 catalytic residues [active] 984892004694 metal binding site [ion binding]; metal-binding site 984892004695 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 984892004696 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 984892004697 ATP binding site [chemical binding]; other site 984892004698 putative Mg++ binding site [ion binding]; other site 984892004699 helicase superfamily c-terminal domain; Region: HELICc; smart00490 984892004700 nucleotide binding region [chemical binding]; other site 984892004701 ATP-binding site [chemical binding]; other site 984892004702 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 984892004703 Flavoprotein; Region: Flavoprotein; pfam02441 984892004704 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 984892004705 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 984892004706 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 984892004707 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 984892004708 catalytic site [active] 984892004709 G-X2-G-X-G-K; other site 984892004710 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 984892004711 Domain of unknown function (DUF814); Region: DUF814; pfam05670 984892004712 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 984892004713 dimer interface [polypeptide binding]; other site 984892004714 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892004715 active site 984892004716 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 984892004717 active site 984892004718 dimer interface [polypeptide binding]; other site 984892004719 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 984892004720 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 984892004721 heterodimer interface [polypeptide binding]; other site 984892004722 active site 984892004723 FMN binding site [chemical binding]; other site 984892004724 homodimer interface [polypeptide binding]; other site 984892004725 substrate binding site [chemical binding]; other site 984892004726 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 984892004727 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 984892004728 FAD binding pocket [chemical binding]; other site 984892004729 FAD binding motif [chemical binding]; other site 984892004730 phosphate binding motif [ion binding]; other site 984892004731 beta-alpha-beta structure motif; other site 984892004732 NAD binding pocket [chemical binding]; other site 984892004733 Iron coordination center [ion binding]; other site 984892004734 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 984892004735 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984892004736 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 984892004737 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 984892004738 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984892004739 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984892004740 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 984892004741 IMP binding site; other site 984892004742 dimer interface [polypeptide binding]; other site 984892004743 interdomain contacts; other site 984892004744 partial ornithine binding site; other site 984892004745 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 984892004746 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 984892004747 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 984892004748 catalytic site [active] 984892004749 subunit interface [polypeptide binding]; other site 984892004750 dihydroorotase; Validated; Region: pyrC; PRK09357 984892004751 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 984892004752 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 984892004753 active site 984892004754 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 984892004755 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 984892004756 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 984892004757 uracil transporter; Provisional; Region: PRK10720 984892004758 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 984892004759 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892004760 active site 984892004761 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 984892004762 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 984892004763 RNA binding surface [nucleotide binding]; other site 984892004764 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984892004765 active site 984892004766 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 984892004767 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 984892004768 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 984892004769 HIGH motif; other site 984892004770 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984892004771 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 984892004772 active site 984892004773 KMSKS motif; other site 984892004774 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 984892004775 tRNA binding surface [nucleotide binding]; other site 984892004776 anticodon binding site; other site 984892004777 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 984892004778 DivIVA protein; Region: DivIVA; pfam05103 984892004779 DivIVA domain; Region: DivI1A_domain; TIGR03544 984892004780 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 984892004781 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 984892004782 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 984892004783 RNA binding surface [nucleotide binding]; other site 984892004784 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 984892004785 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 984892004786 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 984892004787 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 984892004788 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 984892004789 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 984892004790 Asp-box motif; other site 984892004791 catalytic site [active] 984892004792 Domain of unknown function (DUF386); Region: DUF386; cl01047 984892004793 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 984892004794 Na binding site [ion binding]; other site 984892004795 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 984892004796 Class I aldolases; Region: Aldolase_Class_I; cl17187 984892004797 catalytic residue [active] 984892004798 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 984892004799 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 984892004800 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 984892004801 putative active site [active] 984892004802 Sugar transport protein; Region: Sugar_transport; pfam06800 984892004803 D-ribose pyranase; Provisional; Region: PRK11797 984892004804 YGGT family; Region: YGGT; pfam02325 984892004805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 984892004806 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 984892004807 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984892004808 catalytic residue [active] 984892004809 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 984892004810 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 984892004811 cell division protein FtsZ; Validated; Region: PRK09330 984892004812 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 984892004813 nucleotide binding site [chemical binding]; other site 984892004814 SulA interaction site; other site 984892004815 cell division protein FtsA; Region: ftsA; TIGR01174 984892004816 Cell division protein FtsA; Region: FtsA; smart00842 984892004817 Cell division protein FtsA; Region: FtsA; pfam14450 984892004818 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 984892004819 Cell division protein FtsQ; Region: FtsQ; pfam03799 984892004820 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 984892004821 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 984892004822 NAD binding site [chemical binding]; other site 984892004823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984892004824 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984892004825 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 984892004826 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 984892004827 Mg++ binding site [ion binding]; other site 984892004828 putative catalytic motif [active] 984892004829 putative substrate binding site [chemical binding]; other site 984892004830 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 984892004831 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 984892004832 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 984892004833 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 984892004834 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 984892004835 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 984892004836 MraW methylase family; Region: Methyltransf_5; pfam01795 984892004837 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 984892004838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 984892004839 MraZ protein; Region: MraZ; pfam02381 984892004840 MraZ protein; Region: MraZ; pfam02381 984892004841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 984892004842 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 984892004843 hypothetical protein; Provisional; Region: PRK13688 984892004844 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892004845 Coenzyme A binding pocket [chemical binding]; other site 984892004846 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 984892004847 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 984892004848 motif II; other site 984892004849 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 984892004850 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 984892004851 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 984892004852 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 984892004853 dimer interface [polypeptide binding]; other site 984892004854 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984892004855 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 984892004856 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 984892004857 active site 984892004858 metal binding site [ion binding]; metal-binding site 984892004859 homotetramer interface [polypeptide binding]; other site 984892004860 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 984892004861 active site 984892004862 dimerization interface [polypeptide binding]; other site 984892004863 glutamate racemase; Provisional; Region: PRK00865 984892004864 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 984892004865 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 984892004866 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 984892004867 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 984892004868 L-aspartate oxidase; Provisional; Region: PRK06175 984892004869 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 984892004870 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 984892004871 putative Iron-sulfur protein interface [polypeptide binding]; other site 984892004872 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 984892004873 proximal heme binding site [chemical binding]; other site 984892004874 distal heme binding site [chemical binding]; other site 984892004875 putative dimer interface [polypeptide binding]; other site 984892004876 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 984892004877 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 984892004878 GIY-YIG motif/motif A; other site 984892004879 active site 984892004880 catalytic site [active] 984892004881 putative DNA binding site [nucleotide binding]; other site 984892004882 metal binding site [ion binding]; metal-binding site 984892004883 UvrB/uvrC motif; Region: UVR; pfam02151 984892004884 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 984892004885 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 984892004886 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984892004887 catalytic residues [active] 984892004888 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 984892004889 MutS domain III; Region: MutS_III; pfam05192 984892004890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892004891 Walker A/P-loop; other site 984892004892 ATP binding site [chemical binding]; other site 984892004893 Q-loop/lid; other site 984892004894 ABC transporter signature motif; other site 984892004895 Walker B; other site 984892004896 D-loop; other site 984892004897 H-loop/switch region; other site 984892004898 Smr domain; Region: Smr; pfam01713 984892004899 hypothetical protein; Provisional; Region: PRK08609 984892004900 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 984892004901 active site 984892004902 primer binding site [nucleotide binding]; other site 984892004903 NTP binding site [chemical binding]; other site 984892004904 metal binding triad [ion binding]; metal-binding site 984892004905 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 984892004906 active site 984892004907 Colicin V production protein; Region: Colicin_V; pfam02674 984892004908 Cell division protein ZapA; Region: ZapA; cl01146 984892004909 ribonuclease HIII; Provisional; Region: PRK00996 984892004910 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 984892004911 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 984892004912 RNA/DNA hybrid binding site [nucleotide binding]; other site 984892004913 active site 984892004914 Alkylmercury lyase; Region: MerB; pfam03243 984892004915 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 984892004916 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 984892004917 putative tRNA-binding site [nucleotide binding]; other site 984892004918 B3/4 domain; Region: B3_4; pfam03483 984892004919 tRNA synthetase B5 domain; Region: B5; smart00874 984892004920 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 984892004921 dimer interface [polypeptide binding]; other site 984892004922 motif 1; other site 984892004923 motif 3; other site 984892004924 motif 2; other site 984892004925 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 984892004926 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 984892004927 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 984892004928 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 984892004929 dimer interface [polypeptide binding]; other site 984892004930 motif 1; other site 984892004931 active site 984892004932 motif 2; other site 984892004933 motif 3; other site 984892004934 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 984892004935 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 984892004936 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984892004937 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 984892004938 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 984892004939 hypothetical protein; Provisional; Region: PRK13670 984892004940 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 984892004941 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 984892004942 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 984892004943 active site 984892004944 (T/H)XGH motif; other site 984892004945 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 984892004946 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 984892004947 S-adenosylmethionine binding site [chemical binding]; other site 984892004948 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 984892004949 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 984892004950 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 984892004951 putative active site [active] 984892004952 catalytic site [active] 984892004953 putative metal binding site [ion binding]; other site 984892004954 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 984892004955 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 984892004956 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 984892004957 Protein of unknown function (DUF420); Region: DUF420; pfam04238 984892004958 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 984892004959 UbiA prenyltransferase family; Region: UbiA; pfam01040 984892004960 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 984892004961 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 984892004962 pyruvate carboxylase; Reviewed; Region: PRK12999 984892004963 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984892004964 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 984892004965 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 984892004966 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 984892004967 active site 984892004968 catalytic residues [active] 984892004969 metal binding site [ion binding]; metal-binding site 984892004970 homodimer binding site [polypeptide binding]; other site 984892004971 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 984892004972 carboxyltransferase (CT) interaction site; other site 984892004973 biotinylation site [posttranslational modification]; other site 984892004974 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892004975 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892004976 putative active site [active] 984892004977 putative NTP binding site [chemical binding]; other site 984892004978 putative nucleic acid binding site [nucleotide binding]; other site 984892004979 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892004980 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 984892004981 hypothetical protein; Provisional; Region: PRK13666 984892004982 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 984892004983 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 984892004984 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 984892004985 putative active site [active] 984892004986 putative FMN binding site [chemical binding]; other site 984892004987 putative substrate binding site [chemical binding]; other site 984892004988 putative catalytic residue [active] 984892004989 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 984892004990 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 984892004991 G1 box; other site 984892004992 putative GEF interaction site [polypeptide binding]; other site 984892004993 GTP/Mg2+ binding site [chemical binding]; other site 984892004994 Switch I region; other site 984892004995 G2 box; other site 984892004996 G3 box; other site 984892004997 Switch II region; other site 984892004998 G4 box; other site 984892004999 G5 box; other site 984892005000 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 984892005001 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 984892005002 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 984892005003 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 984892005004 active site 984892005005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 984892005006 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 984892005007 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 984892005008 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 984892005009 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 984892005010 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 984892005011 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 984892005012 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 984892005013 ABC-ATPase subunit interface; other site 984892005014 putative PBP binding loops; other site 984892005015 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 984892005016 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 984892005017 dimer interface [polypeptide binding]; other site 984892005018 conserved gate region; other site 984892005019 putative PBP binding loops; other site 984892005020 ABC-ATPase subunit interface; other site 984892005021 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 984892005022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892005023 Walker A/P-loop; other site 984892005024 ATP binding site [chemical binding]; other site 984892005025 Q-loop/lid; other site 984892005026 ABC transporter signature motif; other site 984892005027 Walker B; other site 984892005028 D-loop; other site 984892005029 H-loop/switch region; other site 984892005030 TOBE domain; Region: TOBE_2; pfam08402 984892005031 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 984892005032 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 984892005033 non-specific DNA binding site [nucleotide binding]; other site 984892005034 salt bridge; other site 984892005035 sequence-specific DNA binding site [nucleotide binding]; other site 984892005036 Cupin domain; Region: Cupin_2; pfam07883 984892005037 hypothetical protein; Provisional; Region: PRK04387 984892005038 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 984892005039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984892005040 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892005041 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984892005042 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 984892005043 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 984892005044 E3 interaction surface; other site 984892005045 lipoyl attachment site [posttranslational modification]; other site 984892005046 e3 binding domain; Region: E3_binding; pfam02817 984892005047 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984892005048 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 984892005049 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 984892005050 alpha subunit interface [polypeptide binding]; other site 984892005051 TPP binding site [chemical binding]; other site 984892005052 heterodimer interface [polypeptide binding]; other site 984892005053 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984892005054 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 984892005055 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 984892005056 TPP-binding site [chemical binding]; other site 984892005057 tetramer interface [polypeptide binding]; other site 984892005058 heterodimer interface [polypeptide binding]; other site 984892005059 phosphorylation loop region [posttranslational modification] 984892005060 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 984892005061 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 984892005062 active site 984892005063 catalytic residues [active] 984892005064 metal binding site [ion binding]; metal-binding site 984892005065 hypothetical protein; Provisional; Region: PRK13667 984892005066 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 984892005067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 984892005068 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 984892005069 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 984892005070 TrkA-N domain; Region: TrkA_N; pfam02254 984892005071 TrkA-C domain; Region: TrkA_C; pfam02080 984892005072 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 984892005073 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 984892005074 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 984892005075 catalytic residues [active] 984892005076 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 984892005077 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 984892005078 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 984892005079 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 984892005080 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 984892005081 dimerization domain swap beta strand [polypeptide binding]; other site 984892005082 regulatory protein interface [polypeptide binding]; other site 984892005083 active site 984892005084 regulatory phosphorylation site [posttranslational modification]; other site 984892005085 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 984892005086 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 984892005087 putative RNA binding site [nucleotide binding]; other site 984892005088 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984892005089 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 984892005090 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 984892005091 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 984892005092 Walker A/P-loop; other site 984892005093 ATP binding site [chemical binding]; other site 984892005094 Q-loop/lid; other site 984892005095 ABC transporter signature motif; other site 984892005096 Walker B; other site 984892005097 D-loop; other site 984892005098 H-loop/switch region; other site 984892005099 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 984892005100 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 984892005101 Walker A/P-loop; other site 984892005102 ATP binding site [chemical binding]; other site 984892005103 Q-loop/lid; other site 984892005104 ABC transporter signature motif; other site 984892005105 Walker B; other site 984892005106 D-loop; other site 984892005107 H-loop/switch region; other site 984892005108 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 984892005109 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 984892005110 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 984892005111 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 984892005112 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 984892005113 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 984892005114 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 984892005115 purine monophosphate binding site [chemical binding]; other site 984892005116 dimer interface [polypeptide binding]; other site 984892005117 putative catalytic residues [active] 984892005118 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 984892005119 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 984892005120 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 984892005121 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 984892005122 active site 984892005123 substrate binding site [chemical binding]; other site 984892005124 cosubstrate binding site; other site 984892005125 catalytic site [active] 984892005126 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 984892005127 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 984892005128 dimerization interface [polypeptide binding]; other site 984892005129 putative ATP binding site [chemical binding]; other site 984892005130 amidophosphoribosyltransferase; Provisional; Region: PRK07272 984892005131 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 984892005132 active site 984892005133 tetramer interface [polypeptide binding]; other site 984892005134 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892005135 active site 984892005136 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 984892005137 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 984892005138 dimerization interface [polypeptide binding]; other site 984892005139 ATP binding site [chemical binding]; other site 984892005140 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 984892005141 dimerization interface [polypeptide binding]; other site 984892005142 ATP binding site [chemical binding]; other site 984892005143 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 984892005144 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 984892005145 putative active site [active] 984892005146 catalytic triad [active] 984892005147 Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]; Region: PurS; COG1828 984892005148 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 984892005149 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 984892005150 ATP binding site [chemical binding]; other site 984892005151 active site 984892005152 substrate binding site [chemical binding]; other site 984892005153 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 984892005154 ATP-grasp domain; Region: ATP-grasp; pfam02222 984892005155 AIR carboxylase; Region: AIRC; pfam00731 984892005156 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 984892005157 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 984892005158 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 984892005159 homodimer interface [polypeptide binding]; other site 984892005160 NADP binding site [chemical binding]; other site 984892005161 substrate binding site [chemical binding]; other site 984892005162 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 984892005163 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 984892005164 heme-binding site [chemical binding]; other site 984892005165 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 984892005166 FAD binding pocket [chemical binding]; other site 984892005167 FAD binding motif [chemical binding]; other site 984892005168 phosphate binding motif [ion binding]; other site 984892005169 beta-alpha-beta structure motif; other site 984892005170 NAD binding pocket [chemical binding]; other site 984892005171 Heme binding pocket [chemical binding]; other site 984892005172 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 984892005173 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 984892005174 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 984892005175 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 984892005176 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 984892005177 D-pathway; other site 984892005178 Putative ubiquinol binding site [chemical binding]; other site 984892005179 Low-spin heme (heme b) binding site [chemical binding]; other site 984892005180 Putative water exit pathway; other site 984892005181 Binuclear center (heme o3/CuB) [ion binding]; other site 984892005182 K-pathway; other site 984892005183 Putative proton exit pathway; other site 984892005184 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 984892005185 Subunit I/III interface [polypeptide binding]; other site 984892005186 Subunit III/IV interface [polypeptide binding]; other site 984892005187 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 984892005188 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 984892005189 active site 984892005190 tetramer interface [polypeptide binding]; other site 984892005191 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 984892005192 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 984892005193 ATP binding site [chemical binding]; other site 984892005194 H+ Antiporter protein; Region: 2A0121; TIGR00900 984892005195 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 984892005196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984892005197 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 984892005198 Catalytic domain of Protein Kinases; Region: PKc; cd00180 984892005199 active site 984892005200 ATP binding site [chemical binding]; other site 984892005201 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 984892005202 substrate binding site [chemical binding]; other site 984892005203 activation loop (A-loop); other site 984892005204 Uncharacterized conserved protein [Function unknown]; Region: COG4278 984892005205 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 984892005206 Predicted membrane protein [Function unknown]; Region: COG3212 984892005207 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 984892005208 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 984892005209 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 984892005210 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984892005211 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 984892005212 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 984892005213 Walker A/P-loop; other site 984892005214 ATP binding site [chemical binding]; other site 984892005215 Q-loop/lid; other site 984892005216 ABC transporter signature motif; other site 984892005217 Walker B; other site 984892005218 D-loop; other site 984892005219 H-loop/switch region; other site 984892005220 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984892005221 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 984892005222 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 984892005223 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 984892005224 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 984892005225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 984892005226 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 984892005227 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 984892005228 active site 984892005229 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 984892005230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984892005231 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 984892005232 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 984892005233 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 984892005234 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 984892005235 active site 984892005236 substrate binding site [chemical binding]; other site 984892005237 metal binding site [ion binding]; metal-binding site 984892005238 Transcriptional regulator [Transcription]; Region: LytR; COG1316 984892005239 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 984892005240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892005241 Coenzyme A binding pocket [chemical binding]; other site 984892005242 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 984892005243 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 984892005244 amidase catalytic site [active] 984892005245 Zn binding residues [ion binding]; other site 984892005246 substrate binding site [chemical binding]; other site 984892005247 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 984892005248 Lysozyme subfamily 2; Region: LYZ2; smart00047 984892005249 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 984892005250 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 984892005251 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 984892005252 active site 984892005253 catalytic triad [active] 984892005254 oxyanion hole [active] 984892005255 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 984892005256 Acyltransferase family; Region: Acyl_transf_3; pfam01757 984892005257 aminotransferase A; Validated; Region: PRK07683 984892005258 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 984892005259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892005260 homodimer interface [polypeptide binding]; other site 984892005261 catalytic residue [active] 984892005262 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 984892005263 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 984892005264 substrate binding site [chemical binding]; other site 984892005265 oxyanion hole (OAH) forming residues; other site 984892005266 trimer interface [polypeptide binding]; other site 984892005267 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 984892005268 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 984892005269 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 984892005270 dimer interface [polypeptide binding]; other site 984892005271 tetramer interface [polypeptide binding]; other site 984892005272 PYR/PP interface [polypeptide binding]; other site 984892005273 TPP binding site [chemical binding]; other site 984892005274 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 984892005275 TPP-binding site; other site 984892005276 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 984892005277 chorismate binding enzyme; Region: Chorismate_bind; cl10555 984892005278 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 984892005279 UbiA prenyltransferase family; Region: UbiA; pfam01040 984892005280 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 984892005281 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 984892005282 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984892005283 Walker A/P-loop; other site 984892005284 ATP binding site [chemical binding]; other site 984892005285 Q-loop/lid; other site 984892005286 ABC transporter signature motif; other site 984892005287 Walker B; other site 984892005288 D-loop; other site 984892005289 H-loop/switch region; other site 984892005290 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 984892005291 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892005292 Coenzyme A binding pocket [chemical binding]; other site 984892005293 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984892005294 Predicted transcriptional regulator [Transcription]; Region: COG3682 984892005295 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 984892005296 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 984892005297 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 984892005298 YolD-like protein; Region: YolD; pfam08863 984892005299 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 984892005300 Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes various bacterial transposases similar to TnpB from transposon Tn554; Region: INT_Tn544B_C; cd01195 984892005301 Int/Topo IB signature motif; other site 984892005302 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 984892005303 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 984892005304 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 984892005305 Int/Topo IB signature motif; other site 984892005306 YolD-like protein; Region: YolD; pfam08863 984892005307 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 984892005308 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 984892005309 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 984892005310 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 984892005311 A short protein domain of unknown function; Region: IDEAL; smart00914 984892005312 ComK protein; Region: ComK; cl11560 984892005313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984892005314 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 984892005315 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 984892005316 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 984892005317 RibD C-terminal domain; Region: RibD_C; cl17279 984892005318 Predicted transcriptional regulator [Transcription]; Region: COG2378 984892005319 HTH domain; Region: HTH_11; pfam08279 984892005320 WYL domain; Region: WYL; pfam13280 984892005321 Aminoglycoside 3'-phosphotransferase (APH). The APH 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...; Region: APH; cd05150 984892005322 active site 984892005323 ATP binding site [chemical binding]; other site 984892005324 Phosphotransferase enzyme family; Region: APH; pfam01636 984892005325 antibiotic binding site [chemical binding]; other site 984892005326 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892005327 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 984892005328 Coenzyme A binding pocket [chemical binding]; other site 984892005329 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 984892005330 Methyltransferase domain; Region: Methyltransf_31; pfam13847 984892005331 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 984892005332 S-adenosylmethionine binding site [chemical binding]; other site 984892005333 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 984892005334 active site 984892005335 NTP binding site [chemical binding]; other site 984892005336 metal binding triad [ion binding]; metal-binding site 984892005337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 984892005338 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 984892005339 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 984892005340 S-adenosylmethionine binding site [chemical binding]; other site 984892005341 Omega Transcriptional Repressor; Region: Omega_Repress; pfam07764 984892005342 DNA topoisomerase III; Provisional; Region: PRK07726 984892005343 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 984892005344 active site 984892005345 putative interdomain interaction site [polypeptide binding]; other site 984892005346 putative metal-binding site [ion binding]; other site 984892005347 putative nucleotide binding site [chemical binding]; other site 984892005348 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 984892005349 domain I; other site 984892005350 DNA binding groove [nucleotide binding] 984892005351 phosphate binding site [ion binding]; other site 984892005352 domain II; other site 984892005353 domain III; other site 984892005354 nucleotide binding site [chemical binding]; other site 984892005355 catalytic site [active] 984892005356 domain IV; other site 984892005357 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 984892005358 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 984892005359 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 984892005360 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 984892005361 catalytic residues [active] 984892005362 catalytic nucleophile [active] 984892005363 Presynaptic Site I dimer interface [polypeptide binding]; other site 984892005364 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 984892005365 Synaptic Flat tetramer interface [polypeptide binding]; other site 984892005366 Synaptic Site I dimer interface [polypeptide binding]; other site 984892005367 DNA binding site [nucleotide binding] 984892005368 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 984892005369 Transcriptional regulator; Region: Rrf2; cl17282 984892005370 Mucin-like glycoprotein; Region: Mucin; pfam01456 984892005371 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 984892005372 Cna protein B-type domain; Region: Cna_B; pfam05738 984892005373 Cna protein B-type domain; Region: Cna_B; pfam05738 984892005374 Cna protein B-type domain; Region: Cna_B; pfam05738 984892005375 Cna protein B-type domain; Region: Cna_B; pfam05738 984892005376 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 984892005377 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 984892005378 active site 984892005379 metal binding site [ion binding]; metal-binding site 984892005380 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 984892005381 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 984892005382 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 984892005383 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 984892005384 acyl-activating enzyme (AAE) consensus motif; other site 984892005385 AMP binding site [chemical binding]; other site 984892005386 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 984892005387 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 984892005388 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 984892005389 DltD N-terminal region; Region: DltD_N; pfam04915 984892005390 DltD central region; Region: DltD_M; pfam04918 984892005391 DltD C-terminal region; Region: DltD_C; pfam04914 984892005392 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 984892005393 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 984892005394 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 984892005395 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984892005396 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 984892005397 protein binding site [polypeptide binding]; other site 984892005398 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 984892005399 yybP-ykoY leader; SPSE_1816 984892005400 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 984892005401 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 984892005402 G1 box; other site 984892005403 putative GEF interaction site [polypeptide binding]; other site 984892005404 GTP/Mg2+ binding site [chemical binding]; other site 984892005405 Switch I region; other site 984892005406 G2 box; other site 984892005407 G3 box; other site 984892005408 Switch II region; other site 984892005409 G4 box; other site 984892005410 G5 box; other site 984892005411 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 984892005412 YueH-like protein; Region: YueH; pfam14166 984892005413 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 984892005414 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984892005415 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984892005416 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984892005417 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 984892005418 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 984892005419 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 984892005420 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892005421 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 984892005422 putative substrate translocation pore; other site 984892005423 Sulfatase; Region: Sulfatase; cl17466 984892005424 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 984892005425 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 984892005426 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 984892005427 hypothetical protein; Provisional; Region: PRK13679 984892005428 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 984892005429 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 984892005430 Putative esterase; Region: Esterase; pfam00756 984892005431 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 984892005432 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 984892005433 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 984892005434 Domain of unknown function DUF20; Region: UPF0118; pfam01594 984892005435 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 984892005436 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 984892005437 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 984892005438 Asp-box motif; other site 984892005439 catalytic site [active] 984892005440 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 984892005441 MFS/sugar transport protein; Region: MFS_2; pfam13347 984892005442 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 984892005443 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 984892005444 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 984892005445 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 984892005446 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 984892005447 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 984892005448 NAD binding site [chemical binding]; other site 984892005449 homotetramer interface [polypeptide binding]; other site 984892005450 homodimer interface [polypeptide binding]; other site 984892005451 substrate binding site [chemical binding]; other site 984892005452 active site 984892005453 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 984892005454 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 984892005455 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 984892005456 TrkA-N domain; Region: TrkA_N; pfam02254 984892005457 TrkA-C domain; Region: TrkA_C; pfam02080 984892005458 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 984892005459 MgtE intracellular N domain; Region: MgtE_N; smart00924 984892005460 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 984892005461 Divalent cation transporter; Region: MgtE; pfam01769 984892005462 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 984892005463 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984892005464 active site 984892005465 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 984892005466 ATP-NAD kinase; Region: NAD_kinase; pfam01513 984892005467 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 984892005468 synthetase active site [active] 984892005469 NTP binding site [chemical binding]; other site 984892005470 metal binding site [ion binding]; metal-binding site 984892005471 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 984892005472 putative active site [active] 984892005473 putative metal binding residues [ion binding]; other site 984892005474 signature motif; other site 984892005475 putative triphosphate binding site [ion binding]; other site 984892005476 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 984892005477 apolar tunnel; other site 984892005478 heme binding site [chemical binding]; other site 984892005479 dimerization interface [polypeptide binding]; other site 984892005480 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 984892005481 Thioredoxin; Region: Thioredoxin_5; pfam13743 984892005482 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 984892005483 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 984892005484 oligoendopeptidase F; Region: pepF; TIGR00181 984892005485 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 984892005486 active site 984892005487 Zn binding site [ion binding]; other site 984892005488 Competence protein CoiA-like family; Region: CoiA; cl11541 984892005489 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 984892005490 adaptor protein; Provisional; Region: PRK02315 984892005491 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 984892005492 ArsC family; Region: ArsC; pfam03960 984892005493 putative catalytic residues [active] 984892005494 thiol/disulfide switch; other site 984892005495 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 984892005496 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 984892005497 active site 984892005498 HIGH motif; other site 984892005499 dimer interface [polypeptide binding]; other site 984892005500 KMSKS motif; other site 984892005501 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 984892005502 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 984892005503 peptide binding site [polypeptide binding]; other site 984892005504 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 984892005505 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892005506 Walker A/P-loop; other site 984892005507 ATP binding site [chemical binding]; other site 984892005508 Q-loop/lid; other site 984892005509 ABC transporter signature motif; other site 984892005510 Walker B; other site 984892005511 D-loop; other site 984892005512 H-loop/switch region; other site 984892005513 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 984892005514 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 984892005515 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892005516 Walker A/P-loop; other site 984892005517 ATP binding site [chemical binding]; other site 984892005518 Q-loop/lid; other site 984892005519 ABC transporter signature motif; other site 984892005520 Walker B; other site 984892005521 D-loop; other site 984892005522 H-loop/switch region; other site 984892005523 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 984892005524 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 984892005525 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 984892005526 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 984892005527 dimer interface [polypeptide binding]; other site 984892005528 conserved gate region; other site 984892005529 putative PBP binding loops; other site 984892005530 ABC-ATPase subunit interface; other site 984892005531 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 984892005532 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 984892005533 dimer interface [polypeptide binding]; other site 984892005534 conserved gate region; other site 984892005535 putative PBP binding loops; other site 984892005536 ABC-ATPase subunit interface; other site 984892005537 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 984892005538 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 984892005539 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 984892005540 dimer interface [polypeptide binding]; other site 984892005541 active site 984892005542 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 984892005543 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 984892005544 dimer interface [polypeptide binding]; other site 984892005545 active site 984892005546 CoA binding pocket [chemical binding]; other site 984892005547 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 984892005548 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 984892005549 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 984892005550 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 984892005551 Walker A motif; other site 984892005552 ATP binding site [chemical binding]; other site 984892005553 Walker B motif; other site 984892005554 arginine finger; other site 984892005555 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 984892005556 Walker A motif; other site 984892005557 ATP binding site [chemical binding]; other site 984892005558 Walker B motif; other site 984892005559 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 984892005560 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 984892005561 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 984892005562 yrhL-like subfamily of SGNH-hydrolases, 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_yrhL_like; cd01840 984892005563 catalytic triad [active] 984892005564 catalytic triad [active] 984892005565 oxyanion hole [active] 984892005566 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 984892005567 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 984892005568 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 984892005569 active site 984892005570 motif I; other site 984892005571 motif II; other site 984892005572 coenzyme A disulfide reductase; Provisional; Region: PRK13512 984892005573 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892005574 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984892005575 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892005576 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892005577 putative active site [active] 984892005578 putative NTP binding site [chemical binding]; other site 984892005579 putative nucleic acid binding site [nucleotide binding]; other site 984892005580 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892005581 hypothetical protein; Provisional; Region: PRK13673 984892005582 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 984892005583 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 984892005584 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 984892005585 Part of AAA domain; Region: AAA_19; pfam13245 984892005586 Family description; Region: UvrD_C_2; pfam13538 984892005587 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 984892005588 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 984892005589 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 984892005590 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 984892005591 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 984892005592 Catalytic site [active] 984892005593 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 984892005594 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 984892005595 Catalytic site [active] 984892005596 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 984892005597 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 984892005598 active site 984892005599 dimer interface [polypeptide binding]; other site 984892005600 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 984892005601 dimer interface [polypeptide binding]; other site 984892005602 active site 984892005603 argininosuccinate synthase; Provisional; Region: PRK13820 984892005604 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 984892005605 ANP binding site [chemical binding]; other site 984892005606 Substrate Binding Site II [chemical binding]; other site 984892005607 Substrate Binding Site I [chemical binding]; other site 984892005608 argininosuccinate lyase; Provisional; Region: PRK00855 984892005609 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 984892005610 active sites [active] 984892005611 tetramer interface [polypeptide binding]; other site 984892005612 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 984892005613 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 984892005614 active site 984892005615 catalytic site [active] 984892005616 metal binding site [ion binding]; metal-binding site 984892005617 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 984892005618 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 984892005619 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 984892005620 NAD(P) binding site [chemical binding]; other site 984892005621 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 984892005622 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 984892005623 inhibitor-cofactor binding pocket; inhibition site 984892005624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892005625 catalytic residue [active] 984892005626 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 984892005627 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 984892005628 Glutamate binding site [chemical binding]; other site 984892005629 homodimer interface [polypeptide binding]; other site 984892005630 NAD binding site [chemical binding]; other site 984892005631 catalytic residues [active] 984892005632 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 984892005633 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 984892005634 RNA binding site [nucleotide binding]; other site 984892005635 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 984892005636 DNA-binding site [nucleotide binding]; DNA binding site 984892005637 RNA-binding motif; other site 984892005638 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 984892005639 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 984892005640 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 984892005641 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 984892005642 active site 984892005643 Kinase associated protein B; Region: KapB; pfam08810 984892005644 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 984892005645 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 984892005646 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 984892005647 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 984892005648 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 984892005649 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 984892005650 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 984892005651 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 984892005652 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 984892005653 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12587 984892005654 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 984892005655 CoenzymeA binding site [chemical binding]; other site 984892005656 subunit interaction site [polypeptide binding]; other site 984892005657 PHB binding site; other site 984892005658 Predicted permease [General function prediction only]; Region: COG2056 984892005659 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 984892005660 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 984892005661 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 984892005662 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 984892005663 interface (dimer of trimers) [polypeptide binding]; other site 984892005664 Substrate-binding/catalytic site; other site 984892005665 Zn-binding sites [ion binding]; other site 984892005666 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 984892005667 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892005668 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 984892005669 hypothetical protein; Provisional; Region: PRK13669 984892005670 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 984892005671 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892005672 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 984892005673 NifU-like domain; Region: NifU; pfam01106 984892005674 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 984892005675 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 984892005676 dimerization interface [polypeptide binding]; other site 984892005677 ligand binding site [chemical binding]; other site 984892005678 NADP binding site [chemical binding]; other site 984892005679 catalytic site [active] 984892005680 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 984892005681 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 984892005682 active site 984892005683 motif I; other site 984892005684 motif II; other site 984892005685 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 984892005686 Uncharacterized conserved protein [Function unknown]; Region: COG2445 984892005687 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 984892005688 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 984892005689 lipoyl synthase; Provisional; Region: PRK05481 984892005690 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 984892005691 FeS/SAM binding site; other site 984892005692 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 984892005693 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 984892005694 active site 984892005695 metal binding site [ion binding]; metal-binding site 984892005696 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 984892005697 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984892005698 Protein of unknown function DUF72; Region: DUF72; pfam01904 984892005699 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984892005700 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984892005701 Domain of unknown function DUF21; Region: DUF21; pfam01595 984892005702 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 984892005703 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 984892005704 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 984892005705 FeS assembly protein SufB; Region: sufB; TIGR01980 984892005706 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 984892005707 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 984892005708 trimerization site [polypeptide binding]; other site 984892005709 active site 984892005710 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 984892005711 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 984892005712 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892005713 catalytic residue [active] 984892005714 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 984892005715 FeS assembly protein SufD; Region: sufD; TIGR01981 984892005716 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 984892005717 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 984892005718 Walker A/P-loop; other site 984892005719 ATP binding site [chemical binding]; other site 984892005720 Q-loop/lid; other site 984892005721 ABC transporter signature motif; other site 984892005722 Walker B; other site 984892005723 D-loop; other site 984892005724 H-loop/switch region; other site 984892005725 Domain of unknown function (DUF368); Region: DUF368; pfam04018 984892005726 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 984892005727 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 984892005728 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 984892005729 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 984892005730 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 984892005731 dimer interface [polypeptide binding]; other site 984892005732 conserved gate region; other site 984892005733 ABC-ATPase subunit interface; other site 984892005734 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 984892005735 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 984892005736 Walker A/P-loop; other site 984892005737 ATP binding site [chemical binding]; other site 984892005738 Q-loop/lid; other site 984892005739 ABC transporter signature motif; other site 984892005740 Walker B; other site 984892005741 D-loop; other site 984892005742 H-loop/switch region; other site 984892005743 NIL domain; Region: NIL; pfam09383 984892005744 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 984892005745 catalytic residues [active] 984892005746 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 984892005747 putative active site [active] 984892005748 putative metal binding site [ion binding]; other site 984892005749 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 984892005750 lipoyl attachment site [posttranslational modification]; other site 984892005751 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 984892005752 ArsC family; Region: ArsC; pfam03960 984892005753 putative ArsC-like catalytic residues; other site 984892005754 putative TRX-like catalytic residues [active] 984892005755 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 984892005756 catalytic residues [active] 984892005757 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 984892005758 putative FMN binding site [chemical binding]; other site 984892005759 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 984892005760 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 984892005761 active site 984892005762 catalytic residue [active] 984892005763 dimer interface [polypeptide binding]; other site 984892005764 D-lactate dehydrogenase; Validated; Region: PRK08605 984892005765 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 984892005766 homodimer interface [polypeptide binding]; other site 984892005767 ligand binding site [chemical binding]; other site 984892005768 NAD binding site [chemical binding]; other site 984892005769 catalytic site [active] 984892005770 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 984892005771 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 984892005772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892005773 Coenzyme A binding pocket [chemical binding]; other site 984892005774 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 984892005775 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 984892005776 Beta-lactamase; Region: Beta-lactamase; pfam00144 984892005777 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 984892005778 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 984892005779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 984892005780 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 984892005781 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 984892005782 active site 984892005783 metal binding site [ion binding]; metal-binding site 984892005784 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 984892005785 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 984892005786 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 984892005787 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 984892005788 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 984892005789 SmpB-tmRNA interface; other site 984892005790 ribonuclease R; Region: RNase_R; TIGR02063 984892005791 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 984892005792 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 984892005793 RNB domain; Region: RNB; pfam00773 984892005794 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 984892005795 RNA binding site [nucleotide binding]; other site 984892005796 Esterase/lipase [General function prediction only]; Region: COG1647 984892005797 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 984892005798 enolase; Provisional; Region: eno; PRK00077 984892005799 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 984892005800 dimer interface [polypeptide binding]; other site 984892005801 metal binding site [ion binding]; metal-binding site 984892005802 substrate binding pocket [chemical binding]; other site 984892005803 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 984892005804 phosphoglyceromutase; Provisional; Region: PRK05434 984892005805 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 984892005806 triosephosphate isomerase; Provisional; Region: PRK14565 984892005807 substrate binding site [chemical binding]; other site 984892005808 dimer interface [polypeptide binding]; other site 984892005809 catalytic triad [active] 984892005810 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 984892005811 Phosphoglycerate kinase; Region: PGK; pfam00162 984892005812 substrate binding site [chemical binding]; other site 984892005813 hinge regions; other site 984892005814 ADP binding site [chemical binding]; other site 984892005815 catalytic site [active] 984892005816 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 984892005817 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 984892005818 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 984892005819 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 984892005820 Predicted transcriptional regulator [Transcription]; Region: COG3388 984892005821 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 984892005822 TIGR01777 family protein; Region: yfcH 984892005823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984892005824 NAD(P) binding site [chemical binding]; other site 984892005825 active site 984892005826 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 984892005827 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892005828 Coenzyme A binding pocket [chemical binding]; other site 984892005829 Clp protease; Region: CLP_protease; pfam00574 984892005830 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 984892005831 oligomer interface [polypeptide binding]; other site 984892005832 active site residues [active] 984892005833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 984892005834 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 984892005835 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 984892005836 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 984892005837 phosphate binding site [ion binding]; other site 984892005838 putative substrate binding pocket [chemical binding]; other site 984892005839 dimer interface [polypeptide binding]; other site 984892005840 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 984892005841 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 984892005842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892005843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892005844 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 984892005845 binding surface 984892005846 TPR motif; other site 984892005847 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 984892005848 TPR motif; other site 984892005849 binding surface 984892005850 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 984892005851 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 984892005852 trimer interface [polypeptide binding]; other site 984892005853 active site 984892005854 substrate binding site [chemical binding]; other site 984892005855 CoA binding site [chemical binding]; other site 984892005856 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 984892005857 HPr kinase/phosphorylase; Provisional; Region: PRK05428 984892005858 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 984892005859 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 984892005860 Hpr binding site; other site 984892005861 active site 984892005862 homohexamer subunit interaction site [polypeptide binding]; other site 984892005863 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 984892005864 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984892005865 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984892005866 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 984892005867 excinuclease ABC subunit B; Provisional; Region: PRK05298 984892005868 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 984892005869 ATP binding site [chemical binding]; other site 984892005870 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 984892005871 nucleotide binding region [chemical binding]; other site 984892005872 ATP-binding site [chemical binding]; other site 984892005873 Ultra-violet resistance protein B; Region: UvrB; pfam12344 984892005874 UvrB/uvrC motif; Region: UVR; pfam02151 984892005875 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; pfam09964 984892005876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984892005877 Zn2+ binding site [ion binding]; other site 984892005878 Mg2+ binding site [ion binding]; other site 984892005879 peptide chain release factor 2; Provisional; Region: PRK06746 984892005880 This domain is found in peptide chain release factors; Region: PCRF; smart00937 984892005881 RF-1 domain; Region: RF-1; pfam00472 984892005882 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 984892005883 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 984892005884 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 984892005885 nucleotide binding region [chemical binding]; other site 984892005886 ATP-binding site [chemical binding]; other site 984892005887 SEC-C motif; Region: SEC-C; pfam02810 984892005888 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 984892005889 30S subunit binding site; other site 984892005890 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 984892005891 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892005892 active site 984892005893 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 984892005894 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 984892005895 ATP binding site [chemical binding]; other site 984892005896 putative Mg++ binding site [ion binding]; other site 984892005897 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 984892005898 nucleotide binding region [chemical binding]; other site 984892005899 ATP-binding site [chemical binding]; other site 984892005900 EDD domain protein, DegV family; Region: DegV; TIGR00762 984892005901 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 984892005902 Uncharacterized conserved protein [Function unknown]; Region: COG1739 984892005903 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 984892005904 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 984892005905 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 984892005906 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 984892005907 Mg++ binding site [ion binding]; other site 984892005908 putative catalytic motif [active] 984892005909 substrate binding site [chemical binding]; other site 984892005910 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 984892005911 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 984892005912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 984892005913 metal binding site [ion binding]; metal-binding site 984892005914 active site 984892005915 I-site; other site 984892005916 Uncharacterized conserved protein [Function unknown]; Region: COG2966 984892005917 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 984892005918 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 984892005919 peptidase T; Region: peptidase-T; TIGR01882 984892005920 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 984892005921 metal binding site [ion binding]; metal-binding site 984892005922 dimer interface [polypeptide binding]; other site 984892005923 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 984892005924 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 984892005925 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 984892005926 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 984892005927 FAD binding domain; Region: FAD_binding_4; pfam01565 984892005928 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 984892005929 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 984892005930 CHY zinc finger; Region: zf-CHY; pfam05495 984892005931 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 984892005932 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 984892005933 dimer interface [polypeptide binding]; other site 984892005934 putative radical transfer pathway; other site 984892005935 diiron center [ion binding]; other site 984892005936 tyrosyl radical; other site 984892005937 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 984892005938 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 984892005939 Class I ribonucleotide reductase; Region: RNR_I; cd01679 984892005940 active site 984892005941 dimer interface [polypeptide binding]; other site 984892005942 catalytic residues [active] 984892005943 effector binding site; other site 984892005944 R2 peptide binding site; other site 984892005945 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 984892005946 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 984892005947 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 984892005948 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 984892005949 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 984892005950 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 984892005951 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 984892005952 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 984892005953 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 984892005954 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 984892005955 putative substrate translocation pore; other site 984892005956 POT family; Region: PTR2; cl17359 984892005957 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 984892005958 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 984892005959 putative substrate translocation pore; other site 984892005960 POT family; Region: PTR2; cl17359 984892005961 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 984892005962 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 984892005963 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 984892005964 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 984892005965 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 984892005966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892005967 homodimer interface [polypeptide binding]; other site 984892005968 catalytic residue [active] 984892005969 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 984892005970 dimer interface [polypeptide binding]; other site 984892005971 conserved gate region; other site 984892005972 ABC-ATPase subunit interface; other site 984892005973 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 984892005974 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 984892005975 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 984892005976 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 984892005977 Walker A/P-loop; other site 984892005978 ATP binding site [chemical binding]; other site 984892005979 Q-loop/lid; other site 984892005980 ABC transporter signature motif; other site 984892005981 Walker B; other site 984892005982 D-loop; other site 984892005983 H-loop/switch region; other site 984892005984 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 984892005985 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 984892005986 ATP binding site [chemical binding]; other site 984892005987 putative Mg++ binding site [ion binding]; other site 984892005988 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 984892005989 nucleotide binding region [chemical binding]; other site 984892005990 ATP-binding site [chemical binding]; other site 984892005991 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 984892005992 HRDC domain; Region: HRDC; pfam00570 984892005993 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 984892005994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892005995 Walker A/P-loop; other site 984892005996 ATP binding site [chemical binding]; other site 984892005997 Q-loop/lid; other site 984892005998 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892005999 ABC transporter signature motif; other site 984892006000 Walker B; other site 984892006001 D-loop; other site 984892006002 ABC transporter; Region: ABC_tran_2; pfam12848 984892006003 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984892006004 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 984892006005 ZIP Zinc transporter; Region: Zip; pfam02535 984892006006 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 984892006007 Sulfatase; Region: Sulfatase; pfam00884 984892006008 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 984892006009 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 984892006010 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 984892006011 aminodeoxychorismate synthase; Provisional; Region: PRK07508 984892006012 chorismate binding enzyme; Region: Chorismate_bind; cl10555 984892006013 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 984892006014 Glutamine amidotransferase class-I; Region: GATase; pfam00117 984892006015 glutamine binding [chemical binding]; other site 984892006016 catalytic triad [active] 984892006017 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 984892006018 Ligand Binding Site [chemical binding]; other site 984892006019 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 984892006020 active site 984892006021 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 984892006022 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 984892006023 FeS/SAM binding site; other site 984892006024 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 984892006025 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 984892006026 Ligand binding site; other site 984892006027 Putative Catalytic site; other site 984892006028 DXD motif; other site 984892006029 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 984892006030 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 984892006031 Domain of unknown function DUF21; Region: DUF21; pfam01595 984892006032 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 984892006033 Transporter associated domain; Region: CorC_HlyC; smart01091 984892006034 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 984892006035 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 984892006036 active site 984892006037 phosphorylation site [posttranslational modification] 984892006038 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 984892006039 active site 984892006040 P-loop; other site 984892006041 phosphorylation site [posttranslational modification] 984892006042 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 984892006043 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 984892006044 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 984892006045 putative substrate binding site [chemical binding]; other site 984892006046 putative ATP binding site [chemical binding]; other site 984892006047 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 984892006048 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 984892006049 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 984892006050 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 984892006051 putative deacylase active site [active] 984892006052 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 984892006053 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984892006054 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 984892006055 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 984892006056 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892006057 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 984892006058 putative substrate translocation pore; other site 984892006059 Protein of unknown function (DUF1361); Region: DUF1361; pfam07099 984892006060 CAAX protease self-immunity; Region: Abi; pfam02517 984892006061 malate dehydrogenase; Reviewed; Region: PRK06223 984892006062 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 984892006063 NAD(P) binding site [chemical binding]; other site 984892006064 dimer interface [polypeptide binding]; other site 984892006065 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984892006066 substrate binding site [chemical binding]; other site 984892006067 RloB-like protein; Region: RloB; pfam13707 984892006068 AAA domain; Region: AAA_21; pfam13304 984892006069 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006070 ABC transporter signature motif; other site 984892006071 Walker B; other site 984892006072 D-loop; other site 984892006073 H-loop/switch region; other site 984892006074 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 984892006075 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 984892006076 active site 984892006077 catalytic tetrad [active] 984892006078 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 984892006079 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 984892006080 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 984892006081 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984892006082 MarR family; Region: MarR; pfam01047 984892006083 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 984892006084 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 984892006085 Walker A/P-loop; other site 984892006086 ATP binding site [chemical binding]; other site 984892006087 Q-loop/lid; other site 984892006088 ABC transporter signature motif; other site 984892006089 Walker B; other site 984892006090 D-loop; other site 984892006091 H-loop/switch region; other site 984892006092 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 984892006093 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984892006094 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006095 Walker A/P-loop; other site 984892006096 ATP binding site [chemical binding]; other site 984892006097 Q-loop/lid; other site 984892006098 ABC transporter signature motif; other site 984892006099 Walker B; other site 984892006100 D-loop; other site 984892006101 H-loop/switch region; other site 984892006102 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 984892006103 hypothetical protein; Validated; Region: PRK00124 984892006104 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 984892006105 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 984892006106 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 984892006107 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 984892006108 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892006109 Coenzyme A binding pocket [chemical binding]; other site 984892006110 NADH dehydrogenase; Region: NADHdh; cl00469 984892006111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 984892006112 sugar efflux transporter; Region: 2A0120; TIGR00899 984892006113 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 984892006114 putative substrate translocation pore; other site 984892006115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984892006116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984892006117 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 984892006118 dimerization interface [polypeptide binding]; other site 984892006119 Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]; Region: COG2306 984892006120 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 984892006121 hypothetical protein; Provisional; Region: PRK12378 984892006122 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 984892006123 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 984892006124 ATP binding site [chemical binding]; other site 984892006125 substrate interface [chemical binding]; other site 984892006126 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 984892006127 ThiS interaction site; other site 984892006128 putative active site [active] 984892006129 tetramer interface [polypeptide binding]; other site 984892006130 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 984892006131 thiS-thiF/thiG interaction site; other site 984892006132 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 984892006133 thiamine phosphate binding site [chemical binding]; other site 984892006134 active site 984892006135 pyrophosphate binding site [ion binding]; other site 984892006136 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 984892006137 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 984892006138 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892006139 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892006140 Surface antigen [General function prediction only]; Region: COG3942 984892006141 CHAP domain; Region: CHAP; pfam05257 984892006142 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 984892006143 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 984892006144 FtsX-like permease family; Region: FtsX; pfam02687 984892006145 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 984892006146 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984892006147 Walker A/P-loop; other site 984892006148 ATP binding site [chemical binding]; other site 984892006149 Q-loop/lid; other site 984892006150 ABC transporter signature motif; other site 984892006151 Walker B; other site 984892006152 D-loop; other site 984892006153 H-loop/switch region; other site 984892006154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984892006155 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 984892006156 ATP binding site [chemical binding]; other site 984892006157 Mg2+ binding site [ion binding]; other site 984892006158 G-X-G motif; other site 984892006159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892006160 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 984892006161 active site 984892006162 phosphorylation site [posttranslational modification] 984892006163 intermolecular recognition site; other site 984892006164 dimerization interface [polypeptide binding]; other site 984892006165 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 984892006166 DNA binding site [nucleotide binding] 984892006167 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 984892006168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984892006169 NAD(P) binding site [chemical binding]; other site 984892006170 active site 984892006171 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 984892006172 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892006173 Coenzyme A binding pocket [chemical binding]; other site 984892006174 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 984892006175 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 984892006176 Uncharacterized membrane protein [Function unknown]; Region: COG3949 984892006177 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 984892006178 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 984892006179 putative substrate translocation pore; other site 984892006180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 984892006181 Transposase; Region: DDE_Tnp_ISL3; pfam01610 984892006182 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 984892006183 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 984892006184 ABC-ATPase subunit interface; other site 984892006185 dimer interface [polypeptide binding]; other site 984892006186 putative PBP binding regions; other site 984892006187 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 984892006188 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 984892006189 ABC-ATPase subunit interface; other site 984892006190 dimer interface [polypeptide binding]; other site 984892006191 putative PBP binding regions; other site 984892006192 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 984892006193 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 984892006194 Walker A/P-loop; other site 984892006195 ATP binding site [chemical binding]; other site 984892006196 Q-loop/lid; other site 984892006197 ABC transporter signature motif; other site 984892006198 Walker B; other site 984892006199 D-loop; other site 984892006200 H-loop/switch region; other site 984892006201 Uncharacterized conserved protein [Function unknown]; Region: COG1284 984892006202 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 984892006203 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 984892006204 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 984892006205 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 984892006206 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 984892006207 FeoA domain; Region: FeoA; pfam04023 984892006208 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 984892006209 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 984892006210 G1 box; other site 984892006211 GTP/Mg2+ binding site [chemical binding]; other site 984892006212 Switch I region; other site 984892006213 G2 box; other site 984892006214 G3 box; other site 984892006215 Switch II region; other site 984892006216 G4 box; other site 984892006217 G5 box; other site 984892006218 Nucleoside recognition; Region: Gate; pfam07670 984892006219 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 984892006220 Nucleoside recognition; Region: Gate; pfam07670 984892006221 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984892006222 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984892006223 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006224 Walker A/P-loop; other site 984892006225 ATP binding site [chemical binding]; other site 984892006226 Q-loop/lid; other site 984892006227 ABC transporter signature motif; other site 984892006228 Walker B; other site 984892006229 D-loop; other site 984892006230 H-loop/switch region; other site 984892006231 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 984892006232 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 984892006233 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 984892006234 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 984892006235 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892006236 putative substrate translocation pore; other site 984892006237 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984892006238 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 984892006239 active site 984892006240 nucleotide binding site [chemical binding]; other site 984892006241 HIGH motif; other site 984892006242 KMSKS motif; other site 984892006243 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 984892006244 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 984892006245 ABC-2 type transporter; Region: ABC2_membrane; cl17235 984892006246 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 984892006247 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 984892006248 Walker A/P-loop; other site 984892006249 ATP binding site [chemical binding]; other site 984892006250 Q-loop/lid; other site 984892006251 ABC transporter signature motif; other site 984892006252 Walker B; other site 984892006253 D-loop; other site 984892006254 H-loop/switch region; other site 984892006255 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 984892006256 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 984892006257 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 984892006258 putative trimer interface [polypeptide binding]; other site 984892006259 putative CoA binding site [chemical binding]; other site 984892006260 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 984892006261 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 984892006262 ParB-like nuclease domain; Region: ParBc; pfam02195 984892006263 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 984892006264 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 984892006265 dimer interface [polypeptide binding]; other site 984892006266 active site 984892006267 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984892006268 catalytic residues [active] 984892006269 substrate binding site [chemical binding]; other site 984892006270 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 984892006271 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 984892006272 IucA / IucC family; Region: IucA_IucC; pfam04183 984892006273 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 984892006274 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 984892006275 IucA / IucC family; Region: IucA_IucC; pfam04183 984892006276 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 984892006277 drug efflux system protein MdtG; Provisional; Region: PRK09874 984892006278 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 984892006279 putative substrate translocation pore; other site 984892006280 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 984892006281 IucA / IucC family; Region: IucA_IucC; pfam04183 984892006282 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 984892006283 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 984892006284 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 984892006285 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 984892006286 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 984892006287 dimer interface [polypeptide binding]; other site 984892006288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892006289 catalytic residue [active] 984892006290 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 984892006291 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 984892006292 siderophore binding site; other site 984892006293 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 984892006294 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 984892006295 ABC-ATPase subunit interface; other site 984892006296 dimer interface [polypeptide binding]; other site 984892006297 putative PBP binding regions; other site 984892006298 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 984892006299 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 984892006300 ABC-ATPase subunit interface; other site 984892006301 dimer interface [polypeptide binding]; other site 984892006302 putative PBP binding regions; other site 984892006303 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 984892006304 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 984892006305 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 984892006306 FeoA domain; Region: FeoA; pfam04023 984892006307 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 984892006308 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 984892006309 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 984892006310 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 984892006311 ABC-ATPase subunit interface; other site 984892006312 dimer interface [polypeptide binding]; other site 984892006313 putative PBP binding regions; other site 984892006314 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 984892006315 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 984892006316 intersubunit interface [polypeptide binding]; other site 984892006317 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12586 984892006318 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12657 984892006319 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 984892006320 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 984892006321 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 984892006322 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12660 984892006323 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12574 984892006324 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12646 984892006325 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 984892006326 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 984892006327 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 984892006328 active site 984892006329 DNA binding site [nucleotide binding] 984892006330 Int/Topo IB signature motif; other site 984892006331 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 984892006332 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 984892006333 Protein of unknown function, DUF606; Region: DUF606; pfam04657 984892006334 Protein of unknown function, DUF606; Region: DUF606; pfam04657 984892006335 staphylococcal accessory regulator family; Region: Staph_reg_Sar; TIGR01889 984892006336 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984892006337 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 984892006338 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 984892006339 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 984892006340 motif II; other site 984892006341 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 984892006342 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 984892006343 ABC-ATPase subunit interface; other site 984892006344 dimer interface [polypeptide binding]; other site 984892006345 putative PBP binding regions; other site 984892006346 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 984892006347 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 984892006348 putative binding site residues; other site 984892006349 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 984892006350 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 984892006351 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 984892006352 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 984892006353 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 984892006354 active site 984892006355 HIGH motif; other site 984892006356 KMSK motif region; other site 984892006357 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 984892006358 tRNA binding surface [nucleotide binding]; other site 984892006359 anticodon binding site; other site 984892006360 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 984892006361 YwhD family; Region: YwhD; pfam08741 984892006362 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 984892006363 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984892006364 Zn2+ binding site [ion binding]; other site 984892006365 Mg2+ binding site [ion binding]; other site 984892006366 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 984892006367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892006368 Coenzyme A binding pocket [chemical binding]; other site 984892006369 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 984892006370 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 984892006371 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 984892006372 active site 984892006373 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 984892006374 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 984892006375 active site 984892006376 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984892006377 active site 984892006378 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 984892006379 cleavage site 984892006380 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 984892006381 active site 984892006382 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 984892006383 Predicted transcriptional regulators [Transcription]; Region: COG1695 984892006384 Transcriptional regulator PadR-like family; Region: PadR; cl17335 984892006385 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 984892006386 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 984892006387 transmembrane helices; other site 984892006388 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 984892006389 Uncharacterized conserved protein [Function unknown]; Region: COG2966 984892006390 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 984892006391 PemK-like protein; Region: PemK; pfam02452 984892006392 putative heme peroxidase; Provisional; Region: PRK12276 984892006393 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 984892006394 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 984892006395 Transposase IS200 like; Region: Y1_Tnp; cl00848 984892006396 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 984892006397 catalytic residues [active] 984892006398 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 984892006399 Low molecular weight phosphatase family; Region: LMWPc; cd00115 984892006400 active site 984892006401 arsenical pump membrane protein; Provisional; Region: PRK15445 984892006402 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 984892006403 transmembrane helices; other site 984892006404 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 984892006405 dimerization interface [polypeptide binding]; other site 984892006406 putative DNA binding site [nucleotide binding]; other site 984892006407 putative Zn2+ binding site [ion binding]; other site 984892006408 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 984892006409 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 984892006410 putative substrate translocation pore; other site 984892006411 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 984892006412 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 984892006413 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 984892006414 HlyD family secretion protein; Region: HlyD_3; pfam13437 984892006415 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 984892006416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 984892006417 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 984892006418 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 984892006419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984892006420 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 984892006421 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 984892006422 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 984892006423 ligand binding site [chemical binding]; other site 984892006424 active site 984892006425 UGI interface [polypeptide binding]; other site 984892006426 catalytic site [active] 984892006427 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 984892006428 dimer interface [polypeptide binding]; other site 984892006429 substrate binding site [chemical binding]; other site 984892006430 ATP binding site [chemical binding]; other site 984892006431 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 984892006432 active site 2 [active] 984892006433 active site 1 [active] 984892006434 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 984892006435 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 984892006436 dimer interface [polypeptide binding]; other site 984892006437 active site 984892006438 acyl-CoA synthetase; Validated; Region: PRK07638 984892006439 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 984892006440 acyl-activating enzyme (AAE) consensus motif; other site 984892006441 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 984892006442 acyl-activating enzyme (AAE) consensus motif; other site 984892006443 AMP binding site [chemical binding]; other site 984892006444 active site 984892006445 CoA binding site [chemical binding]; other site 984892006446 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 984892006447 catalytic core [active] 984892006448 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 984892006449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006450 Q-loop/lid; other site 984892006451 ABC transporter signature motif; other site 984892006452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006453 ABC transporter signature motif; other site 984892006454 Walker B; other site 984892006455 Walker B; other site 984892006456 D-loop; other site 984892006457 D-loop; other site 984892006458 H-loop/switch region; other site 984892006459 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892006460 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892006461 putative active site [active] 984892006462 putative NTP binding site [chemical binding]; other site 984892006463 putative nucleic acid binding site [nucleotide binding]; other site 984892006464 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892006465 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006466 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 984892006467 Walker A/P-loop; other site 984892006468 ATP binding site [chemical binding]; other site 984892006469 ABC transporter signature motif; other site 984892006470 Walker B; other site 984892006471 D-loop; other site 984892006472 H-loop/switch region; other site 984892006473 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 984892006474 active site 984892006475 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 984892006476 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 984892006477 FeS/SAM binding site; other site 984892006478 exported signaling peptide, YydF/SAG_2028 family; Region: expor_sig_YdyF; TIGR04077 984892006479 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 984892006480 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 984892006481 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 984892006482 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 984892006483 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 984892006484 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 984892006485 tetramer interface [polypeptide binding]; other site 984892006486 active site 984892006487 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 984892006488 active site 984892006489 dimer interface [polypeptide binding]; other site 984892006490 magnesium binding site [ion binding]; other site 984892006491 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 984892006492 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 984892006493 active site 984892006494 trimer interface [polypeptide binding]; other site 984892006495 allosteric site; other site 984892006496 active site lid [active] 984892006497 hexamer (dimer of trimers) interface [polypeptide binding]; other site 984892006498 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 984892006499 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 984892006500 putative active site cavity [active] 984892006501 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 984892006502 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 984892006503 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 984892006504 active site turn [active] 984892006505 phosphorylation site [posttranslational modification] 984892006506 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 984892006507 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 984892006508 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 984892006509 putative active site [active] 984892006510 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 984892006511 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 984892006512 putative GTP cyclohydrolase; Provisional; Region: PRK13674 984892006513 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984892006514 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 984892006515 Walker A/P-loop; other site 984892006516 ATP binding site [chemical binding]; other site 984892006517 Q-loop/lid; other site 984892006518 ABC transporter signature motif; other site 984892006519 Walker B; other site 984892006520 D-loop; other site 984892006521 H-loop/switch region; other site 984892006522 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 984892006523 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 984892006524 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 984892006525 active site 984892006526 motif I; other site 984892006527 motif II; other site 984892006528 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 984892006529 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 984892006530 nucleoside/Zn binding site; other site 984892006531 dimer interface [polypeptide binding]; other site 984892006532 catalytic motif [active] 984892006533 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 984892006534 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 984892006535 Substrate-binding site [chemical binding]; other site 984892006536 Substrate specificity [chemical binding]; other site 984892006537 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 984892006538 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 984892006539 Substrate-binding site [chemical binding]; other site 984892006540 Substrate specificity [chemical binding]; other site 984892006541 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 984892006542 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 984892006543 motif II; other site 984892006544 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 984892006545 putative catalytic site [active] 984892006546 metal binding site A [ion binding]; metal-binding site 984892006547 phosphate binding site [ion binding]; other site 984892006548 metal binding site C [ion binding]; metal-binding site 984892006549 metal binding site B [ion binding]; metal-binding site 984892006550 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 984892006551 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 984892006552 homodimer interface [polypeptide binding]; other site 984892006553 substrate-cofactor binding pocket; other site 984892006554 catalytic residue [active] 984892006555 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 984892006556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984892006557 NAD(P) binding site [chemical binding]; other site 984892006558 active site 984892006559 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 984892006560 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 984892006561 substrate-cofactor binding pocket; other site 984892006562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892006563 catalytic residue [active] 984892006564 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 984892006565 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 984892006566 metal binding site [ion binding]; metal-binding site 984892006567 dimer interface [polypeptide binding]; other site 984892006568 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 984892006569 elongation factor Tu; Reviewed; Region: PRK00049 984892006570 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 984892006571 G1 box; other site 984892006572 GEF interaction site [polypeptide binding]; other site 984892006573 GTP/Mg2+ binding site [chemical binding]; other site 984892006574 Switch I region; other site 984892006575 G2 box; other site 984892006576 G3 box; other site 984892006577 Switch II region; other site 984892006578 G4 box; other site 984892006579 G5 box; other site 984892006580 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 984892006581 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 984892006582 Antibiotic Binding Site [chemical binding]; other site 984892006583 elongation factor G; Reviewed; Region: PRK00007 984892006584 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 984892006585 G1 box; other site 984892006586 putative GEF interaction site [polypeptide binding]; other site 984892006587 GTP/Mg2+ binding site [chemical binding]; other site 984892006588 Switch I region; other site 984892006589 G2 box; other site 984892006590 G3 box; other site 984892006591 Switch II region; other site 984892006592 G4 box; other site 984892006593 G5 box; other site 984892006594 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 984892006595 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 984892006596 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 984892006597 30S ribosomal protein S7; Validated; Region: PRK05302 984892006598 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 984892006599 S17 interaction site [polypeptide binding]; other site 984892006600 S8 interaction site; other site 984892006601 16S rRNA interaction site [nucleotide binding]; other site 984892006602 streptomycin interaction site [chemical binding]; other site 984892006603 23S rRNA interaction site [nucleotide binding]; other site 984892006604 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 984892006605 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 984892006606 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 984892006607 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 984892006608 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 984892006609 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 984892006610 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 984892006611 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 984892006612 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 984892006613 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 984892006614 G-loop; other site 984892006615 DNA binding site [nucleotide binding] 984892006616 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 984892006617 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 984892006618 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 984892006619 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 984892006620 RPB12 interaction site [polypeptide binding]; other site 984892006621 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 984892006622 RPB10 interaction site [polypeptide binding]; other site 984892006623 RPB1 interaction site [polypeptide binding]; other site 984892006624 RPB11 interaction site [polypeptide binding]; other site 984892006625 RPB3 interaction site [polypeptide binding]; other site 984892006626 RPB12 interaction site [polypeptide binding]; other site 984892006627 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 984892006628 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 984892006629 S-adenosylmethionine binding site [chemical binding]; other site 984892006630 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 984892006631 peripheral dimer interface [polypeptide binding]; other site 984892006632 core dimer interface [polypeptide binding]; other site 984892006633 L10 interface [polypeptide binding]; other site 984892006634 L11 interface [polypeptide binding]; other site 984892006635 putative EF-Tu interaction site [polypeptide binding]; other site 984892006636 putative EF-G interaction site [polypeptide binding]; other site 984892006637 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 984892006638 23S rRNA interface [nucleotide binding]; other site 984892006639 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 984892006640 Ribosomal protein L10 leader; SPSE_2247 984892006641 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 984892006642 mRNA/rRNA interface [nucleotide binding]; other site 984892006643 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 984892006644 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 984892006645 23S rRNA interface [nucleotide binding]; other site 984892006646 L7/L12 interface [polypeptide binding]; other site 984892006647 putative thiostrepton binding site; other site 984892006648 L25 interface [polypeptide binding]; other site 984892006649 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 984892006650 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 984892006651 putative homodimer interface [polypeptide binding]; other site 984892006652 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 984892006653 heterodimer interface [polypeptide binding]; other site 984892006654 homodimer interface [polypeptide binding]; other site 984892006655 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 984892006656 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 984892006657 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984892006658 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 984892006659 YacP-like NYN domain; Region: NYN_YacP; cl01491 984892006660 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 984892006661 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 984892006662 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984892006663 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 984892006664 dimerization interface [polypeptide binding]; other site 984892006665 active site 984892006666 metal binding site [ion binding]; metal-binding site 984892006667 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 984892006668 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 984892006669 active site 984892006670 HIGH motif; other site 984892006671 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 984892006672 KMSKS motif; other site 984892006673 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 984892006674 tRNA binding surface [nucleotide binding]; other site 984892006675 anticodon binding site; other site 984892006676 serine O-acetyltransferase; Region: cysE; TIGR01172 984892006677 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 984892006678 trimer interface [polypeptide binding]; other site 984892006679 active site 984892006680 substrate binding site [chemical binding]; other site 984892006681 CoA binding site [chemical binding]; other site 984892006682 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 984892006683 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 984892006684 active site 984892006685 HIGH motif; other site 984892006686 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 984892006687 active site 984892006688 KMSKS motif; other site 984892006689 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 984892006690 homotrimer interaction site [polypeptide binding]; other site 984892006691 zinc binding site [ion binding]; other site 984892006692 CDP-binding sites; other site 984892006693 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 984892006694 substrate binding site; other site 984892006695 dimer interface; other site 984892006696 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 984892006697 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 984892006698 putative active site [active] 984892006699 DNA repair protein RadA; Provisional; Region: PRK11823 984892006700 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 984892006701 Walker A motif/ATP binding site; other site 984892006702 ATP binding site [chemical binding]; other site 984892006703 Walker B motif; other site 984892006704 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 984892006705 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 984892006706 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 984892006707 Walker A/P-loop; other site 984892006708 ATP binding site [chemical binding]; other site 984892006709 Q-loop/lid; other site 984892006710 ABC transporter signature motif; other site 984892006711 Walker B; other site 984892006712 D-loop; other site 984892006713 H-loop/switch region; other site 984892006714 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 984892006715 putative FMN binding site [chemical binding]; other site 984892006716 NADPH bind site [chemical binding]; other site 984892006717 YcaO-like family; Region: YcaO; pfam02624 984892006718 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 984892006719 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 984892006720 Clp amino terminal domain; Region: Clp_N; pfam02861 984892006721 Clp amino terminal domain; Region: Clp_N; pfam02861 984892006722 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 984892006723 Walker A motif; other site 984892006724 ATP binding site [chemical binding]; other site 984892006725 Walker B motif; other site 984892006726 arginine finger; other site 984892006727 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 984892006728 Walker A motif; other site 984892006729 ATP binding site [chemical binding]; other site 984892006730 Walker B motif; other site 984892006731 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 984892006732 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 984892006733 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 984892006734 ADP binding site [chemical binding]; other site 984892006735 phosphagen binding site; other site 984892006736 substrate specificity loop; other site 984892006737 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 984892006738 UvrB/uvrC motif; Region: UVR; pfam02151 984892006739 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 984892006740 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 984892006741 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 984892006742 Nucleoside recognition; Region: Gate; pfam07670 984892006743 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 984892006744 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 984892006745 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 984892006746 predicted active site [active] 984892006747 catalytic triad [active] 984892006748 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 984892006749 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 984892006750 active site 984892006751 multimer interface [polypeptide binding]; other site 984892006752 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 984892006753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892006754 DNA-binding site [nucleotide binding]; DNA binding site 984892006755 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 984892006756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892006757 homodimer interface [polypeptide binding]; other site 984892006758 catalytic residue [active] 984892006759 Predicted membrane protein [Function unknown]; Region: COG1289 984892006760 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 984892006761 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 984892006762 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 984892006763 dimer interface [polypeptide binding]; other site 984892006764 putative anticodon binding site; other site 984892006765 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 984892006766 motif 1; other site 984892006767 active site 984892006768 motif 2; other site 984892006769 motif 3; other site 984892006770 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 984892006771 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 984892006772 FMN binding site [chemical binding]; other site 984892006773 active site 984892006774 catalytic residues [active] 984892006775 substrate binding site [chemical binding]; other site 984892006776 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 984892006777 catalytic center binding site [active] 984892006778 ATP binding site [chemical binding]; other site 984892006779 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 984892006780 homooctamer interface [polypeptide binding]; other site 984892006781 active site 984892006782 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 984892006783 dihydropteroate synthase; Region: DHPS; TIGR01496 984892006784 substrate binding pocket [chemical binding]; other site 984892006785 dimer interface [polypeptide binding]; other site 984892006786 inhibitor binding site; inhibition site 984892006787 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 984892006788 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 984892006789 dimer interface [polypeptide binding]; other site 984892006790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892006791 catalytic residue [active] 984892006792 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 984892006793 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 984892006794 dimerization interface [polypeptide binding]; other site 984892006795 domain crossover interface; other site 984892006796 redox-dependent activation switch; other site 984892006797 FtsH Extracellular; Region: FtsH_ext; pfam06480 984892006798 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 984892006799 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 984892006800 Walker A motif; other site 984892006801 ATP binding site [chemical binding]; other site 984892006802 Walker B motif; other site 984892006803 arginine finger; other site 984892006804 Peptidase family M41; Region: Peptidase_M41; pfam01434 984892006805 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892006806 active site 984892006807 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 984892006808 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 984892006809 Ligand Binding Site [chemical binding]; other site 984892006810 TilS substrate C-terminal domain; Region: TilS_C; smart00977 984892006811 hypothetical protein; Provisional; Region: PRK08582 984892006812 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 984892006813 RNA binding site [nucleotide binding]; other site 984892006814 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 984892006815 Septum formation initiator; Region: DivIC; pfam04977 984892006816 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 984892006817 RNA binding surface [nucleotide binding]; other site 984892006818 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 984892006819 putative SAM binding site [chemical binding]; other site 984892006820 putative homodimer interface [polypeptide binding]; other site 984892006821 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 984892006822 homodimer interface [polypeptide binding]; other site 984892006823 metal binding site [ion binding]; metal-binding site 984892006824 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 984892006825 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 984892006826 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 984892006827 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 984892006828 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 984892006829 ATP binding site [chemical binding]; other site 984892006830 putative Mg++ binding site [ion binding]; other site 984892006831 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 984892006832 nucleotide binding region [chemical binding]; other site 984892006833 ATP-binding site [chemical binding]; other site 984892006834 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 984892006835 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 984892006836 putative active site [active] 984892006837 catalytic residue [active] 984892006838 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 984892006839 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 984892006840 5S rRNA interface [nucleotide binding]; other site 984892006841 CTC domain interface [polypeptide binding]; other site 984892006842 L16 interface [polypeptide binding]; other site 984892006843 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 984892006844 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 984892006845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892006846 active site 984892006847 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 984892006848 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 984892006849 Substrate binding site; other site 984892006850 Mg++ binding site; other site 984892006851 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 984892006852 active site 984892006853 substrate binding site [chemical binding]; other site 984892006854 CoA binding site [chemical binding]; other site 984892006855 regulatory protein SpoVG; Reviewed; Region: PRK13259 984892006856 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 984892006857 homotrimer interaction site [polypeptide binding]; other site 984892006858 putative active site [active] 984892006859 pur operon repressor; Provisional; Region: PRK09213 984892006860 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 984892006861 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892006862 active site 984892006863 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 984892006864 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984892006865 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 984892006866 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 984892006867 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 984892006868 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 984892006869 S-adenosylmethionine binding site [chemical binding]; other site 984892006870 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 984892006871 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 984892006872 putative active site [active] 984892006873 putative metal binding site [ion binding]; other site 984892006874 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 984892006875 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 984892006876 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 984892006877 active site 984892006878 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 984892006879 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 984892006880 active site 984892006881 HIGH motif; other site 984892006882 KMSKS motif; other site 984892006883 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 984892006884 tRNA binding surface [nucleotide binding]; other site 984892006885 anticodon binding site; other site 984892006886 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 984892006887 dimer interface [polypeptide binding]; other site 984892006888 putative tRNA-binding site [nucleotide binding]; other site 984892006889 Predicted methyltransferases [General function prediction only]; Region: COG0313 984892006890 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 984892006891 putative SAM binding site [chemical binding]; other site 984892006892 putative homodimer interface [polypeptide binding]; other site 984892006893 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 984892006894 GIY-YIG motif/motif A; other site 984892006895 putative active site [active] 984892006896 putative metal binding site [ion binding]; other site 984892006897 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 984892006898 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 984892006899 S-adenosylmethionine binding site [chemical binding]; other site 984892006900 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 984892006901 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 984892006902 DNA polymerase III subunit delta'; Validated; Region: PRK08058 984892006903 DNA polymerase III subunit delta'; Validated; Region: PRK08485 984892006904 Protein of unknown function (DUF970); Region: DUF970; pfam06153 984892006905 thymidylate kinase; Validated; Region: tmk; PRK00698 984892006906 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 984892006907 TMP-binding site; other site 984892006908 ATP-binding site [chemical binding]; other site 984892006909 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 984892006910 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 984892006911 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892006912 catalytic residue [active] 984892006913 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 984892006914 recombination protein RecR; Reviewed; Region: recR; PRK00076 984892006915 RecR protein; Region: RecR; pfam02132 984892006916 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 984892006917 putative active site [active] 984892006918 putative metal-binding site [ion binding]; other site 984892006919 tetramer interface [polypeptide binding]; other site 984892006920 hypothetical protein; Validated; Region: PRK00153 984892006921 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 984892006922 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 984892006923 Walker A motif; other site 984892006924 ATP binding site [chemical binding]; other site 984892006925 Walker B motif; other site 984892006926 arginine finger; other site 984892006927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892006928 Coenzyme A binding pocket [chemical binding]; other site 984892006929 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 984892006930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 984892006931 DNA-binding site [nucleotide binding]; DNA binding site 984892006932 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 984892006933 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 984892006934 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 984892006935 Ca binding site [ion binding]; other site 984892006936 active site 984892006937 catalytic site [active] 984892006938 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 984892006939 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 984892006940 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 984892006941 active site turn [active] 984892006942 phosphorylation site [posttranslational modification] 984892006943 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 984892006944 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 984892006945 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 984892006946 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 984892006947 active site 984892006948 dimer interface [polypeptide binding]; other site 984892006949 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 984892006950 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 984892006951 active site 984892006952 FMN binding site [chemical binding]; other site 984892006953 substrate binding site [chemical binding]; other site 984892006954 3Fe-4S cluster binding site [ion binding]; other site 984892006955 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 984892006956 domain interface; other site 984892006957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984892006958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984892006959 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 984892006960 dimerization interface [polypeptide binding]; other site 984892006961 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 984892006962 YibE/F-like protein; Region: YibE_F; cl02259 984892006963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006964 Walker A/P-loop; other site 984892006965 ATP binding site [chemical binding]; other site 984892006966 Q-loop/lid; other site 984892006967 AAA domain; Region: AAA_21; pfam13304 984892006968 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984892006969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892006970 Walker A/P-loop; other site 984892006971 ATP binding site [chemical binding]; other site 984892006972 Q-loop/lid; other site 984892006973 ABC transporter signature motif; other site 984892006974 Walker B; other site 984892006975 D-loop; other site 984892006976 H-loop/switch region; other site 984892006977 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892006978 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 984892006979 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892006980 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984892006981 Surface antigen [General function prediction only]; Region: COG3942 984892006982 CHAP domain; Region: CHAP; pfam05257 984892006983 cystathionine beta-lyase; Provisional; Region: PRK07671 984892006984 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 984892006985 homodimer interface [polypeptide binding]; other site 984892006986 substrate-cofactor binding pocket; other site 984892006987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892006988 catalytic residue [active] 984892006989 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 984892006990 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 984892006991 dimer interface [polypeptide binding]; other site 984892006992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892006993 catalytic residue [active] 984892006994 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 984892006995 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 984892006996 substrate binding pocket [chemical binding]; other site 984892006997 catalytic triad [active] 984892006998 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 984892006999 Na2 binding site [ion binding]; other site 984892007000 putative substrate binding site 1 [chemical binding]; other site 984892007001 Na binding site 1 [ion binding]; other site 984892007002 putative substrate binding site 2 [chemical binding]; other site 984892007003 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984892007004 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 984892007005 active site 984892007006 phosphorylation site [posttranslational modification] 984892007007 intermolecular recognition site; other site 984892007008 dimerization interface [polypeptide binding]; other site 984892007009 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 984892007010 DNA binding site [nucleotide binding] 984892007011 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 984892007012 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 984892007013 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 984892007014 Ligand Binding Site [chemical binding]; other site 984892007015 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 984892007016 dimer interface [polypeptide binding]; other site 984892007017 phosphorylation site [posttranslational modification] 984892007018 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 984892007019 ATP binding site [chemical binding]; other site 984892007020 Mg2+ binding site [ion binding]; other site 984892007021 G-X-G motif; other site 984892007022 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; COG2060 984892007023 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 984892007024 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 984892007025 Soluble P-type ATPase [General function prediction only]; Region: COG4087 984892007026 K+-transporting ATPase, c chain; Region: KdpC; cl00944 984892007027 PEP synthetase regulatory protein; Provisional; Region: PRK05339 984892007028 pyruvate phosphate dikinase; Provisional; Region: PRK09279 984892007029 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 984892007030 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 984892007031 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 984892007032 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 984892007033 superantigen-like protein; Reviewed; Region: PRK13036 984892007034 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 984892007035 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 984892007036 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 984892007037 tetramerization interface [polypeptide binding]; other site 984892007038 active site 984892007039 pantoate--beta-alanine ligase; Region: panC; TIGR00018 984892007040 Pantoate-beta-alanine ligase; Region: PanC; cd00560 984892007041 active site 984892007042 ATP-binding site [chemical binding]; other site 984892007043 pantoate-binding site; other site 984892007044 HXXH motif; other site 984892007045 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 984892007046 oligomerization interface [polypeptide binding]; other site 984892007047 active site 984892007048 metal binding site [ion binding]; metal-binding site 984892007049 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 984892007050 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 984892007051 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 984892007052 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 984892007053 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 984892007054 NAD binding site [chemical binding]; other site 984892007055 sugar binding site [chemical binding]; other site 984892007056 divalent metal binding site [ion binding]; other site 984892007057 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 984892007058 dimer interface [polypeptide binding]; other site 984892007059 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 984892007060 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 984892007061 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 984892007062 active site turn [active] 984892007063 phosphorylation site [posttranslational modification] 984892007064 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 984892007065 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 984892007066 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 984892007067 putative active site [active] 984892007068 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 984892007069 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 984892007070 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 984892007071 active site residue [active] 984892007072 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 984892007073 active site residue [active] 984892007074 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 984892007075 CPxP motif; other site 984892007076 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 984892007077 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 984892007078 putative homodimer interface [polypeptide binding]; other site 984892007079 putative homotetramer interface [polypeptide binding]; other site 984892007080 putative metal binding site [ion binding]; other site 984892007081 putative homodimer-homodimer interface [polypeptide binding]; other site 984892007082 putative allosteric switch controlling residues; other site 984892007083 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984892007084 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 984892007085 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 984892007086 putative substrate translocation pore; other site 984892007087 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 984892007088 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984892007089 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984892007090 putative active site [active] 984892007091 putative NTP binding site [chemical binding]; other site 984892007092 putative nucleic acid binding site [nucleotide binding]; other site 984892007093 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 984892007094 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 984892007095 beta-lactamase TEM; Provisional; Region: PRK15442 984892007096 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 984892007097 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 984892007098 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 984892007099 Predicted transcriptional regulator [Transcription]; Region: COG3682 984892007100 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 984892007101 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 984892007102 catalytic residues [active] 984892007103 catalytic nucleophile [active] 984892007104 Presynaptic Site I dimer interface [polypeptide binding]; other site 984892007105 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 984892007106 Synaptic Flat tetramer interface [polypeptide binding]; other site 984892007107 Synaptic Site I dimer interface [polypeptide binding]; other site 984892007108 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 984892007109 DNA-binding interface [nucleotide binding]; DNA binding site 984892007110 Helix-turn-helix domain; Region: HTH_28; pfam13518 984892007111 Winged helix-turn helix; Region: HTH_29; pfam13551 984892007112 Integrase core domain; Region: rve; pfam00665 984892007113 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 984892007114 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 984892007115 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 984892007116 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984892007117 putative substrate translocation pore; other site 984892007118 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 984892007119 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892007120 Walker A/P-loop; other site 984892007121 ATP binding site [chemical binding]; other site 984892007122 Q-loop/lid; other site 984892007123 ABC transporter signature motif; other site 984892007124 Walker B; other site 984892007125 D-loop; other site 984892007126 H-loop/switch region; other site 984892007127 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984892007128 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 984892007129 Walker A/P-loop; other site 984892007130 ATP binding site [chemical binding]; other site 984892007131 Q-loop/lid; other site 984892007132 ABC transporter signature motif; other site 984892007133 Walker B; other site 984892007134 D-loop; other site 984892007135 H-loop/switch region; other site 984892007136 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 984892007137 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 984892007138 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 984892007139 dimer interface [polypeptide binding]; other site 984892007140 conserved gate region; other site 984892007141 putative PBP binding loops; other site 984892007142 ABC-ATPase subunit interface; other site 984892007143 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 984892007144 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 984892007145 dimer interface [polypeptide binding]; other site 984892007146 conserved gate region; other site 984892007147 putative PBP binding loops; other site 984892007148 ABC-ATPase subunit interface; other site 984892007149 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 984892007150 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 984892007151 substrate binding site [chemical binding]; other site 984892007152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 984892007153 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 984892007154 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 984892007155 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 984892007156 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 984892007157 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 984892007158 catalytic triad [active] 984892007159 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 984892007160 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 984892007161 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 984892007162 PGAP1-like protein; Region: PGAP1; pfam07819 984892007163 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 984892007164 Staphylococcal nuclease homologues; Region: SNc; smart00318 984892007165 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 984892007166 Catalytic site; other site 984892007167 Excalibur calcium-binding domain; Region: Excalibur; smart00894 984892007168 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 984892007169 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 984892007170 gating phenylalanine in ion channel; other site 984892007171 Terminase small subunit; Region: Terminase_2; cl01513 984892007172 Transposase, Mutator family; Region: Transposase_mut; pfam00872 984892007173 MULE transposase domain; Region: MULE; pfam10551 984892007174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984892007175 AAA domain; Region: AAA_21; pfam13304 984892007176 Walker A/P-loop; other site 984892007177 ATP binding site [chemical binding]; other site 984892007178 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 984892007179 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 984892007180 putative active site [active] 984892007181 putative metal-binding site [ion binding]; other site 984892007182 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 984892007183 Part of AAA domain; Region: AAA_19; pfam13245 984892007184 Family description; Region: UvrD_C_2; pfam13538 984892007185 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 984892007186 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 984892007187 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 984892007188 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 984892007189 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 984892007190 non-specific DNA binding site [nucleotide binding]; other site 984892007191 salt bridge; other site 984892007192 sequence-specific DNA binding site [nucleotide binding]; other site 984892007193 Replication initiation factor; Region: Rep_trans; pfam02486 984892007194 Abortive infection C-terminus; Region: Abi_C; pfam14355 984892007195 Antirestriction protein (ArdA); Region: ArdA; pfam07275 984892007196 TcpE family; Region: TcpE; pfam12648 984892007197 AAA-like domain; Region: AAA_10; pfam12846 984892007198 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 984892007199 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 984892007200 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984892007201 catalytic residue [active] 984892007202 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 984892007203 NlpC/P60 family; Region: NLPC_P60; pfam00877 984892007204 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 984892007205 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 984892007206 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 984892007207 G1 box; other site 984892007208 putative GEF interaction site [polypeptide binding]; other site 984892007209 GTP/Mg2+ binding site [chemical binding]; other site 984892007210 Switch I region; other site 984892007211 G2 box; other site 984892007212 G3 box; other site 984892007213 Switch II region; other site 984892007214 G4 box; other site 984892007215 G5 box; other site 984892007216 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 984892007217 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 984892007218 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 984892007219 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 984892007220 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 984892007221 non-specific DNA binding site [nucleotide binding]; other site 984892007222 salt bridge; other site 984892007223 sequence-specific DNA binding site [nucleotide binding]; other site 984892007224 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 984892007225 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 984892007226 DNA binding residues [nucleotide binding] 984892007227 Helix-turn-helix domain; Region: HTH_16; pfam12645 984892007228 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 984892007229 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 984892007230 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 984892007231 Int/Topo IB signature motif; other site 984892007232 GMP synthase; Reviewed; Region: guaA; PRK00074 984892007233 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 984892007234 AMP/PPi binding site [chemical binding]; other site 984892007235 candidate oxyanion hole; other site 984892007236 catalytic triad [active] 984892007237 potential glutamine specificity residues [chemical binding]; other site 984892007238 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 984892007239 ATP Binding subdomain [chemical binding]; other site 984892007240 Ligand Binding sites [chemical binding]; other site 984892007241 Dimerization subdomain; other site 984892007242 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 984892007243 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 984892007244 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 984892007245 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 984892007246 active site 984892007247 xanthine permease; Region: pbuX; TIGR03173 984892007248 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984892007249 active site 984892007250 Heat induced stress protein YflT; Region: YflT; pfam11181 984892007251 hydroxyglutarate oxidase; Provisional; Region: PRK11728 984892007252 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 984892007253 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 984892007254 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 984892007255 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984892007256 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 984892007257 Walker A/P-loop; other site 984892007258 ATP binding site [chemical binding]; other site 984892007259 Q-loop/lid; other site 984892007260 ABC transporter signature motif; other site 984892007261 Walker B; other site 984892007262 D-loop; other site 984892007263 H-loop/switch region; other site 984892007264 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 984892007265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 984892007266 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 984892007267 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 984892007268 dimer interface [polypeptide binding]; other site 984892007269 FMN binding site [chemical binding]; other site 984892007270 NADPH bind site [chemical binding]; other site 984892007271 peroxiredoxin; Region: AhpC; TIGR03137 984892007272 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 984892007273 dimer interface [polypeptide binding]; other site 984892007274 decamer (pentamer of dimers) interface [polypeptide binding]; other site 984892007275 catalytic triad [active] 984892007276 peroxidatic and resolving cysteines [active] 984892007277 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 984892007278 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 984892007279 catalytic residue [active] 984892007280 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 984892007281 catalytic residues [active] 984892007282 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984892007283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984892007284 Predicted secreted protein [Function unknown]; Region: COG4086 984892007285 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 984892007286 biotin synthase; Validated; Region: PRK06256 984892007287 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 984892007288 FeS/SAM binding site; other site 984892007289 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 984892007290 Domain of unknown function (DU1801); Region: DUF1801; cl17490 984892007291 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 984892007292 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 984892007293 Walker A/P-loop; other site 984892007294 ATP binding site [chemical binding]; other site 984892007295 Q-loop/lid; other site 984892007296 ABC transporter signature motif; other site 984892007297 Walker B; other site 984892007298 D-loop; other site 984892007299 H-loop/switch region; other site 984892007300 NIL domain; Region: NIL; pfam09383 984892007301 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 984892007302 dimer interface [polypeptide binding]; other site 984892007303 conserved gate region; other site 984892007304 ABC-ATPase subunit interface; other site 984892007305 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 984892007306 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 984892007307 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 984892007308 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 984892007309 active site 984892007310 hydroperoxidase II; Provisional; Region: katE; PRK11249 984892007311 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 984892007312 heme binding pocket [chemical binding]; other site 984892007313 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 984892007314 conserved cys residue [active] 984892007315 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 984892007316 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 984892007317 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 984892007318 dimer interface [polypeptide binding]; other site 984892007319 ssDNA binding site [nucleotide binding]; other site 984892007320 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984892007321 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 984892007322 B domain; Region: B; pfam02216 984892007323 B domain; Region: B; pfam02216 984892007324 C3 binding domain 4 of IgG-bind protein SBI; Region: Sbi-IV; pfam11621 984892007325 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 984892007326 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 984892007327 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 984892007328 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 984892007329 Walker A/P-loop; other site 984892007330 ATP binding site [chemical binding]; other site 984892007331 Q-loop/lid; other site 984892007332 ABC transporter signature motif; other site 984892007333 Walker B; other site 984892007334 D-loop; other site 984892007335 H-loop/switch region; other site 984892007336 GTP-binding protein YchF; Reviewed; Region: PRK09601 984892007337 YchF GTPase; Region: YchF; cd01900 984892007338 G1 box; other site 984892007339 GTP/Mg2+ binding site [chemical binding]; other site 984892007340 Switch I region; other site 984892007341 G2 box; other site 984892007342 Switch II region; other site 984892007343 G3 box; other site 984892007344 G4 box; other site 984892007345 G5 box; other site 984892007346 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 984892007347 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 984892007348 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 984892007349 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984892007350 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 984892007351 ParB-like nuclease domain; Region: ParB; smart00470 984892007352 cystathionine gamma-synthase; Reviewed; Region: PRK08247 984892007353 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 984892007354 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984892007355 catalytic residue [active] 984892007356 cystathionine beta-lyase; Provisional; Region: PRK08064 984892007357 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 984892007358 homodimer interface [polypeptide binding]; other site 984892007359 substrate-cofactor binding pocket; other site 984892007360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984892007361 catalytic residue [active] 984892007362 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 984892007363 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 984892007364 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 984892007365 FAD binding site [chemical binding]; other site 984892007366 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 984892007367 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 984892007368 THF binding site; other site 984892007369 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 984892007370 substrate binding site [chemical binding]; other site 984892007371 THF binding site; other site 984892007372 zinc-binding site [ion binding]; other site 984892007373 UreD urease accessory protein; Region: UreD; cl00530 984892007374 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 984892007375 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 984892007376 UreF; Region: UreF; pfam01730 984892007377 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 984892007378 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 984892007379 dimer interface [polypeptide binding]; other site 984892007380 catalytic residues [active] 984892007381 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 984892007382 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984892007383 Coenzyme A binding pocket [chemical binding]; other site 984892007384 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 984892007385 MarR family; Region: MarR; pfam01047 984892007386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984892007387 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 984892007388 Zn binding site [ion binding]; other site 984892007389 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 984892007390 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984892007391 Zn binding site [ion binding]; other site 984892007392 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 984892007393 Predicted esterase [General function prediction only]; Region: COG0400 984892007394 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 984892007395 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 984892007396 non-specific DNA binding site [nucleotide binding]; other site 984892007397 salt bridge; other site 984892007398 sequence-specific DNA binding site [nucleotide binding]; other site 984892007399 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 984892007400 ParB-like nuclease domain; Region: ParBc; pfam02195 984892007401 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 984892007402 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 984892007403 S-adenosylmethionine binding site [chemical binding]; other site 984892007404 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 984892007405 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 984892007406 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 984892007407 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 984892007408 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 984892007409 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 984892007410 trmE is a tRNA modification GTPase; Region: trmE; cd04164 984892007411 G1 box; other site 984892007412 GTP/Mg2+ binding site [chemical binding]; other site 984892007413 Switch I region; other site 984892007414 G2 box; other site 984892007415 Switch II region; other site 984892007416 G3 box; other site 984892007417 G4 box; other site 984892007418 G5 box; other site 984892007419 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 984892007420 ribonuclease P; Reviewed; Region: rnpA; PRK00499 984892007421 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399