-- dump date 20120504_142348 -- class Genbank::misc_feature -- table misc_feature_note -- id note 642492000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 642492000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 642492000003 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 642492000004 Walker A motif; other site 642492000005 ATP binding site [chemical binding]; other site 642492000006 Walker B motif; other site 642492000007 arginine finger; other site 642492000008 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 642492000009 DnaA box-binding interface [nucleotide binding]; other site 642492000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 642492000011 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 642492000012 putative DNA binding surface [nucleotide binding]; other site 642492000013 dimer interface [polypeptide binding]; other site 642492000014 beta-clamp/clamp loader binding surface; other site 642492000015 beta-clamp/translesion DNA polymerase binding surface; other site 642492000016 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 642492000017 RNA binding surface [nucleotide binding]; other site 642492000018 recombination protein F; Reviewed; Region: recF; PRK00064 642492000019 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 642492000020 Walker A/P-loop; other site 642492000021 ATP binding site [chemical binding]; other site 642492000022 Q-loop/lid; other site 642492000023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000024 ABC transporter signature motif; other site 642492000025 Walker B; other site 642492000026 D-loop; other site 642492000027 H-loop/switch region; other site 642492000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 642492000029 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 642492000030 Mg2+ binding site [ion binding]; other site 642492000031 G-X-G motif; other site 642492000032 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 642492000033 anchoring element; other site 642492000034 dimer interface [polypeptide binding]; other site 642492000035 ATP binding site [chemical binding]; other site 642492000036 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 642492000037 active site 642492000038 metal binding site [ion binding]; metal-binding site 642492000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 642492000040 DNA gyrase subunit A; Validated; Region: PRK05560 642492000041 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 642492000042 CAP-like domain; other site 642492000043 active site 642492000044 primary dimer interface [polypeptide binding]; other site 642492000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 642492000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 642492000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 642492000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 642492000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 642492000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 642492000051 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 642492000052 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 bacteriocins; Region: Peptidase_C39A; cd02549 642492000053 putative active site [active] 642492000054 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 642492000055 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 642492000056 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 642492000057 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 642492000058 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 642492000059 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492000060 catalytic residue [active] 642492000061 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 642492000062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000063 active site 642492000064 Protein of unknown function (DUF327); Region: DUF327; cl00753 642492000065 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 642492000066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000067 PSP1 C-terminal conserved region; Region: PSP1; cl00770 642492000068 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 642492000069 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 642492000070 S-adenosylmethionine binding site [chemical binding]; other site 642492000071 Predicted methyltransferases [General function prediction only]; Region: COG0313 642492000072 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 642492000073 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 642492000074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492000075 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 642492000076 dimerization interface [polypeptide binding]; other site 642492000077 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 642492000078 dimer interface [polypeptide binding]; other site 642492000079 phosphorylation site [posttranslational modification] 642492000080 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 642492000081 ATP binding site [chemical binding]; other site 642492000082 Mg2+ binding site [ion binding]; other site 642492000083 G-X-G motif; other site 642492000084 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000085 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 642492000086 active site 642492000087 phosphorylation site [posttranslational modification] 642492000088 intermolecular recognition site; other site 642492000089 dimerization interface [polypeptide binding]; other site 642492000090 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 642492000091 DNA binding site [nucleotide binding] 642492000092 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 642492000093 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 642492000094 putative catalytic site [active] 642492000095 putative metal binding site [ion binding]; other site 642492000096 putative phosphate binding site [ion binding]; other site 642492000097 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 642492000098 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 642492000099 N- and C-terminal domain interface [polypeptide binding]; other site 642492000100 D-xylulose kinase; Region: XylB; TIGR01312 642492000101 active site 642492000102 catalytic site [active] 642492000103 metal binding site [ion binding]; metal-binding site 642492000104 xylulose binding site [chemical binding]; other site 642492000105 putative ATP binding site [chemical binding]; other site 642492000106 homodimer interface [polypeptide binding]; other site 642492000107 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 642492000108 Helix-turn-helix domains; Region: HTH; cl00088 642492000109 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 642492000110 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 642492000111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 642492000112 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 642492000113 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492000114 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 642492000115 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492000116 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 642492000117 dimer interface [polypeptide binding]; other site 642492000118 phosphorylation site [posttranslational modification] 642492000119 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 642492000120 ATP binding site [chemical binding]; other site 642492000121 Mg2+ binding site [ion binding]; other site 642492000122 G-X-G motif; other site 642492000123 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000124 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 642492000125 active site 642492000126 phosphorylation site [posttranslational modification] 642492000127 intermolecular recognition site; other site 642492000128 dimerization interface [polypeptide binding]; other site 642492000129 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 642492000130 DNA binding site [nucleotide binding] 642492000131 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492000132 Helix-turn-helix domains; Region: HTH; cl00088 642492000133 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492000134 FMN-binding domain; Region: FMN_bind; cl01081 642492000135 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492000136 MatE; Region: MatE; cl10513 642492000137 MatE; Region: MatE; cl10513 642492000138 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 642492000139 endoglucanase; Region: PLN02420 642492000140 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492000141 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492000142 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492000143 DNA binding site [nucleotide binding] 642492000144 domain linker motif; other site 642492000145 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 642492000146 dimerization interface [polypeptide binding]; other site 642492000147 ligand binding site [chemical binding]; other site 642492000148 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 642492000149 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 642492000150 active site turn [active] 642492000151 phosphorylation site [posttranslational modification] 642492000152 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492000153 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 642492000154 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 642492000155 substrate binding [chemical binding]; other site 642492000156 active site 642492000157 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 642492000158 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000159 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 642492000160 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492000161 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492000162 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 642492000163 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 642492000164 dimer interface [polypeptide binding]; other site 642492000165 conserved gate region; other site 642492000166 putative PBP binding loops; other site 642492000167 ABC-ATPase subunit interface; other site 642492000168 sulfate transport protein; Provisional; Region: cysT; CHL00187 642492000169 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 642492000170 dimer interface [polypeptide binding]; other site 642492000171 conserved gate region; other site 642492000172 putative PBP binding loops; other site 642492000173 ABC-ATPase subunit interface; other site 642492000174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000175 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 642492000176 Walker A/P-loop; other site 642492000177 ATP binding site [chemical binding]; other site 642492000178 Q-loop/lid; other site 642492000179 ABC transporter signature motif; other site 642492000180 Walker B; other site 642492000181 D-loop; other site 642492000182 H-loop/switch region; other site 642492000183 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 642492000184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492000185 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 642492000186 Ferredoxin [Energy production and conversion]; Region: COG1146 642492000187 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 642492000188 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 642492000189 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 642492000190 Active Sites [active] 642492000191 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 642492000192 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000193 G1 box; other site 642492000194 GTP/Mg2+ binding site [chemical binding]; other site 642492000195 G2 box; other site 642492000196 Switch I region; other site 642492000197 G3 box; other site 642492000198 Switch II region; other site 642492000199 G4 box; other site 642492000200 G5 box; other site 642492000201 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 642492000202 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 642492000203 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 642492000204 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492000205 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492000206 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492000207 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492000208 Walker A/P-loop; other site 642492000209 ATP binding site [chemical binding]; other site 642492000210 Q-loop/lid; other site 642492000211 ABC transporter signature motif; other site 642492000212 Walker B; other site 642492000213 D-loop; other site 642492000214 H-loop/switch region; other site 642492000215 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492000216 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 642492000217 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 642492000218 FtsX-like permease family; Region: FtsX; cl15850 642492000219 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492000220 FtsX-like permease family; Region: FtsX; cl15850 642492000221 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492000222 Coenzyme A binding pocket [chemical binding]; other site 642492000223 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492000224 Helix-turn-helix domains; Region: HTH; cl00088 642492000225 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 642492000226 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 642492000227 von Willebrand factor; Region: vWF_A; pfam12450 642492000228 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 642492000229 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 642492000230 metal ion-dependent adhesion site (MIDAS); other site 642492000231 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 642492000232 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492000233 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492000234 Walker A/P-loop; other site 642492000235 ATP binding site [chemical binding]; other site 642492000236 Q-loop/lid; other site 642492000237 ABC transporter signature motif; other site 642492000238 Walker B; other site 642492000239 D-loop; other site 642492000240 H-loop/switch region; other site 642492000241 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492000242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000243 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492000244 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492000245 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000247 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 642492000248 Walker A/P-loop; other site 642492000249 ATP binding site [chemical binding]; other site 642492000250 Q-loop/lid; other site 642492000251 ABC transporter signature motif; other site 642492000252 Walker B; other site 642492000253 D-loop; other site 642492000254 H-loop/switch region; other site 642492000255 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 642492000256 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492000257 CAAX protease self-immunity; Region: Abi; cl00558 642492000258 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 642492000259 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492000260 TolA protein; Region: tolA_full; TIGR02794 642492000261 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 642492000262 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 642492000263 DNA binding residues [nucleotide binding] 642492000264 dimer interface [polypeptide binding]; other site 642492000265 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 642492000266 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 642492000267 nudix motif; other site 642492000268 Uncharacterized conserved protein [Function unknown]; Region: COG4715 642492000269 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 642492000270 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 642492000271 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 642492000272 ATP binding site [chemical binding]; other site 642492000273 putative Mg++ binding site [ion binding]; other site 642492000274 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 642492000275 nucleotide binding region [chemical binding]; other site 642492000276 ATP-binding site [chemical binding]; other site 642492000277 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 642492000278 folate binding site [chemical binding]; other site 642492000279 NADP+ binding site [chemical binding]; other site 642492000280 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492000281 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 642492000282 active site 642492000283 phosphorylation site [posttranslational modification] 642492000284 intermolecular recognition site; other site 642492000285 dimerization interface [polypeptide binding]; other site 642492000286 LytTr DNA-binding domain; Region: LytTR; cl04498 642492000287 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 642492000288 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 642492000289 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 bacteriocins; Region: Peptidase_C39B; cd02418 642492000290 putative active site [active] 642492000291 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492000292 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 642492000293 Walker A/P-loop; other site 642492000294 ATP binding site [chemical binding]; other site 642492000295 Q-loop/lid; other site 642492000296 ABC transporter signature motif; other site 642492000297 Walker B; other site 642492000298 D-loop; other site 642492000299 H-loop/switch region; other site 642492000300 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 642492000301 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 642492000302 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 642492000303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 642492000304 TraB family; Region: TraB; cl12050 642492000305 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 642492000306 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 642492000307 FeS/SAM binding site; other site 642492000308 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 642492000309 TPR repeat; Region: TPR_11; pfam13414 642492000310 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 642492000311 binding surface 642492000312 TPR motif; other site 642492000313 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 642492000314 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 642492000315 FeS/SAM binding site; other site 642492000316 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 642492000317 Cobalt transport protein; Region: CbiQ; cl00463 642492000318 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 642492000319 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 642492000320 Walker A/P-loop; other site 642492000321 ATP binding site [chemical binding]; other site 642492000322 Q-loop/lid; other site 642492000323 ABC transporter signature motif; other site 642492000324 Walker B; other site 642492000325 D-loop; other site 642492000326 H-loop/switch region; other site 642492000327 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 642492000328 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 642492000329 Walker A/P-loop; other site 642492000330 ATP binding site [chemical binding]; other site 642492000331 Q-loop/lid; other site 642492000332 ABC transporter signature motif; other site 642492000333 Walker B; other site 642492000334 D-loop; other site 642492000335 H-loop/switch region; other site 642492000336 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 642492000337 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 642492000338 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 642492000339 ATP binding site [chemical binding]; other site 642492000340 putative Mg++ binding site [ion binding]; other site 642492000341 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 642492000342 nucleotide binding region [chemical binding]; other site 642492000343 ATP-binding site [chemical binding]; other site 642492000344 RQC domain; Region: RQC; cl09632 642492000345 HRDC domain; Region: HRDC; cl02578 642492000346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 642492000347 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 642492000348 putative homotetramer interface [polypeptide binding]; other site 642492000349 putative homodimer interface [polypeptide binding]; other site 642492000350 putative allosteric switch controlling residues; other site 642492000351 putative metal binding site [ion binding]; other site 642492000352 putative homodimer-homodimer interface [polypeptide binding]; other site 642492000353 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000354 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 642492000355 active site 642492000356 phosphorylation site [posttranslational modification] 642492000357 intermolecular recognition site; other site 642492000358 dimerization interface [polypeptide binding]; other site 642492000359 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 642492000360 DNA binding site [nucleotide binding] 642492000361 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492000362 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 642492000363 dimerization interface [polypeptide binding]; other site 642492000364 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 642492000365 dimer interface [polypeptide binding]; other site 642492000366 phosphorylation site [posttranslational modification] 642492000367 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 642492000368 ATP binding site [chemical binding]; other site 642492000369 Mg2+ binding site [ion binding]; other site 642492000370 G-X-G motif; other site 642492000371 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492000372 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 642492000373 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 642492000374 active site 642492000375 Zn binding site [ion binding]; other site 642492000376 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 642492000377 active site 642492000378 Ca binding site [ion binding]; other site 642492000379 catalytic site [active] 642492000380 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 642492000381 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 642492000382 2-isopropylmalate synthase; Validated; Region: PRK00915 642492000383 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 642492000384 active site 642492000385 catalytic residues [active] 642492000386 metal binding site [ion binding]; metal-binding site 642492000387 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 642492000388 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 642492000389 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 bacteriocins; Region: Peptidase_C39B; cd02418 642492000390 putative active site [active] 642492000391 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492000392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000393 Walker A/P-loop; other site 642492000394 ATP binding site [chemical binding]; other site 642492000395 Q-loop/lid; other site 642492000396 ABC transporter signature motif; other site 642492000397 Walker B; other site 642492000398 D-loop; other site 642492000399 H-loop/switch region; other site 642492000400 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000401 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 642492000402 active site 642492000403 phosphorylation site [posttranslational modification] 642492000404 intermolecular recognition site; other site 642492000405 dimerization interface [polypeptide binding]; other site 642492000406 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 642492000407 DNA binding site [nucleotide binding] 642492000408 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492000409 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 642492000410 dimerization interface [polypeptide binding]; other site 642492000411 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 642492000412 dimer interface [polypeptide binding]; other site 642492000413 phosphorylation site [posttranslational modification] 642492000414 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 642492000415 ATP binding site [chemical binding]; other site 642492000416 Mg2+ binding site [ion binding]; other site 642492000417 G-X-G motif; other site 642492000418 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 642492000419 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492000420 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492000421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000422 Walker A/P-loop; other site 642492000423 ATP binding site [chemical binding]; other site 642492000424 Q-loop/lid; other site 642492000425 ABC transporter signature motif; other site 642492000426 Walker B; other site 642492000427 D-loop; other site 642492000428 H-loop/switch region; other site 642492000429 Helix-turn-helix domains; Region: HTH; cl00088 642492000430 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492000431 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492000432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000433 Walker A/P-loop; other site 642492000434 ATP binding site [chemical binding]; other site 642492000435 Q-loop/lid; other site 642492000436 ABC transporter signature motif; other site 642492000437 Walker B; other site 642492000438 D-loop; other site 642492000439 H-loop/switch region; other site 642492000440 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 642492000441 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492000442 MoxR-like ATPases [General function prediction only]; Region: COG0714 642492000443 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 642492000444 Walker A motif; other site 642492000445 ATP binding site [chemical binding]; other site 642492000446 Walker B motif; other site 642492000447 arginine finger; other site 642492000448 Helix-turn-helix domains; Region: HTH; cl00088 642492000449 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 642492000450 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 642492000451 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 642492000452 active site 642492000453 dimer interface [polypeptide binding]; other site 642492000454 motif 1; other site 642492000455 motif 2; other site 642492000456 motif 3; other site 642492000457 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 642492000458 anticodon binding site; other site 642492000459 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492000460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000461 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 642492000462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492000463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492000464 Bacterial SH3 domain; Region: SH3_3; cl02551 642492000465 Bacterial SH3 domain; Region: SH3_3; cl02551 642492000466 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 642492000467 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492000468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492000469 DNA-binding site [nucleotide binding]; DNA binding site 642492000470 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492000471 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492000472 Walker A/P-loop; other site 642492000473 ATP binding site [chemical binding]; other site 642492000474 Q-loop/lid; other site 642492000475 ABC transporter signature motif; other site 642492000476 Walker B; other site 642492000477 D-loop; other site 642492000478 H-loop/switch region; other site 642492000479 Protein of unknown function (DUF454); Region: DUF454; cl01063 642492000480 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 642492000481 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 642492000482 tetramer interface [polypeptide binding]; other site 642492000483 heme binding pocket [chemical binding]; other site 642492000484 NADPH binding site [chemical binding]; other site 642492000485 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 642492000486 Walker A motif; other site 642492000487 ATP binding site [chemical binding]; other site 642492000488 Walker B motif; other site 642492000489 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 642492000490 arginine finger; other site 642492000491 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 642492000492 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492000493 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 642492000494 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 642492000495 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492000496 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 642492000497 putative ADP-binding pocket [chemical binding]; other site 642492000498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492000499 Helix-turn-helix domains; Region: HTH; cl00088 642492000500 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 642492000501 dimerization interface [polypeptide binding]; other site 642492000502 DJ-1 family protein; Region: not_thiJ; TIGR01383 642492000503 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 642492000504 conserved cys residue [active] 642492000505 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492000506 Helix-turn-helix domains; Region: HTH; cl00088 642492000507 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 642492000508 dimerization interface [polypeptide binding]; other site 642492000509 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 642492000510 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 642492000511 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 642492000512 homodimer interface [polypeptide binding]; other site 642492000513 substrate-cofactor binding pocket; other site 642492000514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492000515 catalytic residue [active] 642492000516 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 642492000517 DNA-binding site [nucleotide binding]; DNA binding site 642492000518 RNA-binding motif; other site 642492000519 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 642492000520 DNA-binding site [nucleotide binding]; DNA binding site 642492000521 RNA-binding motif; other site 642492000522 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 642492000523 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 642492000524 intersubunit interface [polypeptide binding]; other site 642492000525 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492000526 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492000527 Walker A/P-loop; other site 642492000528 ATP binding site [chemical binding]; other site 642492000529 Q-loop/lid; other site 642492000530 ABC transporter signature motif; other site 642492000531 Walker B; other site 642492000532 D-loop; other site 642492000533 H-loop/switch region; other site 642492000534 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 642492000535 ABC-ATPase subunit interface; other site 642492000536 dimer interface [polypeptide binding]; other site 642492000537 putative PBP binding regions; other site 642492000538 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492000539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000540 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492000541 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 642492000542 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492000543 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 642492000544 DNA binding residues [nucleotide binding] 642492000545 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 642492000546 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000547 Helix-turn-helix domains; Region: HTH; cl00088 642492000548 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 642492000549 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 642492000550 FMN binding site [chemical binding]; other site 642492000551 dimer interface [polypeptide binding]; other site 642492000552 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492000553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000554 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492000555 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 642492000556 putative PBP binding loops; other site 642492000557 dimer interface [polypeptide binding]; other site 642492000558 ABC-ATPase subunit interface; other site 642492000559 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 642492000560 dimer interface [polypeptide binding]; other site 642492000561 conserved gate region; other site 642492000562 putative PBP binding loops; other site 642492000563 ABC-ATPase subunit interface; other site 642492000564 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492000565 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492000566 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 642492000567 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 642492000568 active site 642492000569 catalytic site [active] 642492000570 metal binding site [ion binding]; metal-binding site 642492000571 dimer interface [polypeptide binding]; other site 642492000572 Domain of unknown function (DUF373); Region: DUF373; cl12079 642492000573 Lysis protein; Region: Lysis_col; pfam02402 642492000574 LemA family; Region: LemA; cl00742 642492000575 Cache domain; Region: Cache_2; cl07034 642492000576 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492000577 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492000578 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492000579 dimer interface [polypeptide binding]; other site 642492000580 putative CheW interface [polypeptide binding]; other site 642492000581 Protein of unknown function (DUF434); Region: DUF434; cl04460 642492000582 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492000583 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492000584 DNA-binding site [nucleotide binding]; DNA binding site 642492000585 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492000586 putative transposase OrfB; Reviewed; Region: PHA02517 642492000587 HTH-like domain; Region: HTH_21; pfam13276 642492000588 Integrase core domain; Region: rve; cl01316 642492000589 Integrase core domain; Region: rve_3; cl15866 642492000590 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492000591 Helix-turn-helix domains; Region: HTH; cl00088 642492000592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492000593 Helix-turn-helix domains; Region: HTH; cl00088 642492000594 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 642492000595 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 642492000596 Walker A/P-loop; other site 642492000597 ATP binding site [chemical binding]; other site 642492000598 Q-loop/lid; other site 642492000599 ABC transporter signature motif; other site 642492000600 Walker B; other site 642492000601 D-loop; other site 642492000602 H-loop/switch region; other site 642492000603 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 642492000604 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 642492000605 dimer interface [polypeptide binding]; other site 642492000606 conserved gate region; other site 642492000607 putative PBP binding loops; other site 642492000608 ABC-ATPase subunit interface; other site 642492000609 NMT1-like family; Region: NMT1_2; cl15260 642492000610 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 642492000611 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492000612 Helix-turn-helix domains; Region: HTH; cl00088 642492000613 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 642492000614 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 642492000615 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 642492000616 FtsX-like permease family; Region: FtsX; cl15850 642492000617 FtsX-like permease family; Region: FtsX; cl15850 642492000618 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492000619 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492000620 Walker A/P-loop; other site 642492000621 ATP binding site [chemical binding]; other site 642492000622 Q-loop/lid; other site 642492000623 ABC transporter signature motif; other site 642492000624 Walker B; other site 642492000625 D-loop; other site 642492000626 H-loop/switch region; other site 642492000627 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 642492000628 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492000629 DNA binding residues [nucleotide binding] 642492000630 drug binding residues [chemical binding]; other site 642492000631 dimer interface [polypeptide binding]; other site 642492000632 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492000633 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492000634 Helix-turn-helix domains; Region: HTH; cl00088 642492000635 putative transposase OrfB; Reviewed; Region: PHA02517 642492000636 HTH-like domain; Region: HTH_21; pfam13276 642492000637 Integrase core domain; Region: rve; cl01316 642492000638 Integrase core domain; Region: rve_3; cl15866 642492000639 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 642492000640 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 642492000641 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000642 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000643 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 642492000644 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 642492000645 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492000646 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 642492000647 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492000648 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 642492000649 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 642492000650 putative active site [active] 642492000651 Predicted transcriptional regulator [Transcription]; Region: COG2378 642492000652 WYL domain; Region: WYL; cl14852 642492000653 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492000654 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492000655 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492000656 DNA binding site [nucleotide binding] 642492000657 domain linker motif; other site 642492000658 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 642492000659 dimerization interface [polypeptide binding]; other site 642492000660 ligand binding site [chemical binding]; other site 642492000661 sodium binding site [ion binding]; other site 642492000662 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492000663 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492000664 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492000665 dimer interface [polypeptide binding]; other site 642492000666 putative CheW interface [polypeptide binding]; other site 642492000667 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492000668 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492000669 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 642492000670 dimer interface [polypeptide binding]; other site 642492000671 conserved gate region; other site 642492000672 putative PBP binding loops; other site 642492000673 ABC-ATPase subunit interface; other site 642492000674 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492000675 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 642492000676 dimer interface [polypeptide binding]; other site 642492000677 conserved gate region; other site 642492000678 putative PBP binding loops; other site 642492000679 ABC-ATPase subunit interface; other site 642492000680 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 642492000681 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 642492000682 active site 642492000683 homodimer interface [polypeptide binding]; other site 642492000684 catalytic site [active] 642492000685 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492000686 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 642492000687 putative substrate binding site [chemical binding]; other site 642492000688 putative ATP binding site [chemical binding]; other site 642492000689 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 642492000690 Helix-turn-helix domain; Region: HTH_18; pfam12833 642492000691 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_23; cd09011 642492000692 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492000693 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 642492000694 Cation transport protein; Region: TrkH; cl10514 642492000695 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 642492000696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492000697 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492000698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492000699 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492000700 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 642492000701 Family description; Region: UvrD_C_2; cl15862 642492000702 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 642492000703 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 642492000704 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 642492000705 Catalytic site [active] 642492000706 Z1 domain; Region: Z1; pfam10593 642492000707 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492000708 cofactor binding site; other site 642492000709 DNA binding site [nucleotide binding] 642492000710 substrate interaction site [chemical binding]; other site 642492000711 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 642492000712 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492000713 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 642492000714 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 642492000715 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492000716 cofactor binding site; other site 642492000717 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492000718 DNA binding site [nucleotide binding] 642492000719 substrate interaction site [chemical binding]; other site 642492000720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492000721 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 642492000722 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 642492000723 active site 642492000724 8-oxo-dGMP binding site [chemical binding]; other site 642492000725 nudix motif; other site 642492000726 metal binding site [ion binding]; metal-binding site 642492000727 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 642492000728 PLD-like domain; Region: PLDc_2; pfam13091 642492000729 putative homodimer interface [polypeptide binding]; other site 642492000730 putative active site [active] 642492000731 catalytic site [active] 642492000732 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 642492000733 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 642492000734 ATP binding site [chemical binding]; other site 642492000735 putative Mg++ binding site [ion binding]; other site 642492000736 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 642492000737 nucleotide binding region [chemical binding]; other site 642492000738 ATP-binding site [chemical binding]; other site 642492000739 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 642492000740 Helix-turn-helix domains; Region: HTH; cl00088 642492000741 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 642492000742 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 642492000743 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 642492000744 DNA binding residues [nucleotide binding] 642492000745 dimer interface [polypeptide binding]; other site 642492000746 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492000747 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 642492000748 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 642492000749 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 642492000750 dimerization interface [polypeptide binding]; other site 642492000751 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492000752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000753 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492000754 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492000755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492000756 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492000757 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 642492000758 dimer interface [polypeptide binding]; other site 642492000759 conserved gate region; other site 642492000760 putative PBP binding loops; other site 642492000761 ABC-ATPase subunit interface; other site 642492000762 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 642492000763 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492000764 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492000765 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 642492000766 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 642492000767 octamerization interface [polypeptide binding]; other site 642492000768 diferric-oxygen binding site [ion binding]; other site 642492000769 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 642492000770 Metal-binding active site; metal-binding site 642492000771 NeuB family; Region: NeuB; cl00496 642492000772 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 642492000773 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 642492000774 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 642492000775 Helix-turn-helix domains; Region: HTH; cl00088 642492000776 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 642492000777 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 642492000778 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 642492000779 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 642492000780 MOFRL family; Region: MOFRL; pfam05161 642492000781 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 642492000782 Mrr N-terminal domain; Region: Mrr_N; pfam14338 642492000783 Restriction endonuclease; Region: Mrr_cat; cl00516 642492000784 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 642492000785 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 642492000786 Cupin domain; Region: Cupin_2; cl09118 642492000787 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492000788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 642492000790 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 642492000791 phosphoenolpyruvate synthase; Region: PEP_synth; TIGR01418 642492000792 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492000793 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492000794 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 642492000795 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492000796 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492000797 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 642492000798 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492000799 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492000800 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 642492000801 IMP binding site; other site 642492000802 dimer interface [polypeptide binding]; other site 642492000803 interdomain contacts; other site 642492000804 partial ornithine binding site; other site 642492000805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492000806 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 642492000807 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492000808 Low molecular weight phosphatase family; Region: LMWPc; cd00115 642492000809 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 642492000810 active site 642492000811 CAAX protease self-immunity; Region: Abi; cl00558 642492000812 LytTr DNA-binding domain; Region: LytTR; cl04498 642492000813 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 642492000814 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 642492000815 Ferritin-like domain; Region: Ferritin; pfam00210 642492000816 dimerization interface [polypeptide binding]; other site 642492000817 DPS ferroxidase diiron center [ion binding]; other site 642492000818 ion pore; other site 642492000819 ferric uptake regulator; Provisional; Region: fur; PRK09462 642492000820 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492000821 metal binding site 2 [ion binding]; metal-binding site 642492000822 putative DNA binding helix; other site 642492000823 metal binding site 1 [ion binding]; metal-binding site 642492000824 dimer interface [polypeptide binding]; other site 642492000825 structural Zn2+ binding site [ion binding]; other site 642492000826 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 642492000827 active site 642492000828 CotH protein; Region: CotH; pfam08757 642492000829 CotH protein; Region: CotH; pfam08757 642492000830 CotH protein; Region: CotH; pfam08757 642492000831 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 642492000832 YvrJ protein family; Region: YvrJ; pfam12841 642492000833 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 642492000834 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 642492000835 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 642492000836 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 642492000837 Cation transport protein; Region: TrkH; cl10514 642492000838 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 642492000839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492000840 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492000841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492000842 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 642492000843 Ligand Binding Site [chemical binding]; other site 642492000844 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 642492000845 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492000846 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 642492000847 Cupin domain; Region: Cupin_2; cl09118 642492000848 putative efflux protein, MATE family; Region: matE; TIGR00797 642492000849 MatE; Region: MatE; cl10513 642492000850 MatE; Region: MatE; cl10513 642492000851 cyanate hydratase; Validated; Region: PRK02866 642492000852 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 642492000853 non-specific DNA binding site [nucleotide binding]; other site 642492000854 salt bridge; other site 642492000855 sequence-specific DNA binding site [nucleotide binding]; other site 642492000856 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 642492000857 oligomer interface [polypeptide binding]; other site 642492000858 active site 642492000859 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 642492000860 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492000861 Double zinc ribbon; Region: DZR; pfam12773 642492000862 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492000863 Double zinc ribbon; Region: DZR; pfam12773 642492000864 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492000865 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492000866 DNA binding site [nucleotide binding] 642492000867 domain linker motif; other site 642492000868 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 642492000869 dimerization interface [polypeptide binding]; other site 642492000870 ligand binding site [chemical binding]; other site 642492000871 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 642492000872 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492000873 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 642492000874 dimer interface [polypeptide binding]; other site 642492000875 conserved gate region; other site 642492000876 putative PBP binding loops; other site 642492000877 ABC-ATPase subunit interface; other site 642492000878 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 642492000879 dimer interface [polypeptide binding]; other site 642492000880 conserved gate region; other site 642492000881 putative PBP binding loops; other site 642492000882 ABC-ATPase subunit interface; other site 642492000883 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 642492000884 maltodextrin glucosidase; Provisional; Region: PRK10785 642492000885 homodimer interface [polypeptide binding]; other site 642492000886 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 642492000887 active site 642492000888 homodimer interface [polypeptide binding]; other site 642492000889 catalytic site [active] 642492000890 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 642492000891 S-adenosylmethionine binding site [chemical binding]; other site 642492000892 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 642492000893 putative active site [active] 642492000894 Protein of unknown function (DUF503); Region: DUF503; cl00669 642492000895 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 642492000896 amidase catalytic site [active] 642492000897 Zn binding residues [ion binding]; other site 642492000898 substrate binding site [chemical binding]; other site 642492000899 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 642492000900 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 642492000901 S-adenosylmethionine binding site [chemical binding]; other site 642492000902 VanZ like family; Region: VanZ; cl01971 642492000903 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 642492000904 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492000905 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 642492000906 active site turn [active] 642492000907 phosphorylation site [posttranslational modification] 642492000908 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 642492000909 HPr interaction site; other site 642492000910 glycerol kinase (GK) interaction site [polypeptide binding]; other site 642492000911 active site 642492000912 phosphorylation site [posttranslational modification] 642492000913 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492000914 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 642492000915 hypothetical protein; Provisional; Region: PRK11770 642492000916 Domain of unknown function (DUF307); Region: DUF307; pfam03733 642492000917 Domain of unknown function (DUF307); Region: DUF307; pfam03733 642492000918 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492000919 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492000920 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 642492000921 Helix-turn-helix domains; Region: HTH; cl00088 642492000922 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 642492000923 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492000924 Helix-turn-helix domains; Region: HTH; cl00088 642492000925 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 642492000926 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000927 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492000928 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 642492000929 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 642492000930 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000931 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000932 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 642492000933 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 642492000934 macrophage migration inhibitory factor-like protein; Provisional; Region: PTZ00450 642492000935 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 642492000936 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492000937 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 642492000938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492000939 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 642492000940 catalytic residues [active] 642492000941 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492000942 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 642492000943 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 642492000944 metal binding site [ion binding]; metal-binding site 642492000945 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 642492000946 ligand binding site [chemical binding]; other site 642492000947 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 642492000948 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 642492000949 Walker A/P-loop; other site 642492000950 ATP binding site [chemical binding]; other site 642492000951 Q-loop/lid; other site 642492000952 ABC transporter signature motif; other site 642492000953 Walker B; other site 642492000954 D-loop; other site 642492000955 H-loop/switch region; other site 642492000956 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 642492000957 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 642492000958 TM-ABC transporter signature motif; other site 642492000959 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 642492000960 TM-ABC transporter signature motif; other site 642492000961 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 642492000962 active site 642492000963 YARHG domain; Region: YARHG; pfam13308 642492000964 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 642492000965 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 642492000966 ligand binding site [chemical binding]; other site 642492000967 flexible hinge region; other site 642492000968 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 642492000969 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 642492000970 active site 642492000971 catalytic tetrad [active] 642492000972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492000973 Helix-turn-helix domains; Region: HTH; cl00088 642492000974 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492000975 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 642492000976 putative substrate translocation pore; other site 642492000977 FlgD Ig-like domain; Region: FlgD_ig; cl15790 642492000978 biotin synthase; Region: bioB; TIGR00433 642492000979 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 642492000980 FeS/SAM binding site; other site 642492000981 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 642492000982 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492000983 Helix-turn-helix domains; Region: HTH; cl00088 642492000984 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 642492000985 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 642492000986 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 642492000987 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492000988 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 642492000989 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 642492000990 active site 642492000991 motif I; other site 642492000992 motif II; other site 642492000993 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 642492000994 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000995 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 642492000996 active site 642492000997 phosphorylation site [posttranslational modification] 642492000998 intermolecular recognition site; other site 642492000999 dimerization interface [polypeptide binding]; other site 642492001000 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 642492001001 DNA binding site [nucleotide binding] 642492001002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001003 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 642492001004 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 642492001005 ATP binding site [chemical binding]; other site 642492001006 Mg2+ binding site [ion binding]; other site 642492001007 G-X-G motif; other site 642492001008 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492001009 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492001010 Walker A/P-loop; other site 642492001011 ATP binding site [chemical binding]; other site 642492001012 Q-loop/lid; other site 642492001013 ABC transporter signature motif; other site 642492001014 Walker B; other site 642492001015 D-loop; other site 642492001016 H-loop/switch region; other site 642492001017 FtsX-like permease family; Region: FtsX; cl15850 642492001018 phytoene desaturase; Region: crtI_fam; TIGR02734 642492001019 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 642492001020 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492001021 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492001022 putative active site [active] 642492001023 putative metal binding site [ion binding]; other site 642492001024 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 642492001025 ligand binding site [chemical binding]; other site 642492001026 flexible hinge region; other site 642492001027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492001028 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001029 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 642492001030 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 642492001031 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 642492001032 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 642492001033 intersubunit interface [polypeptide binding]; other site 642492001034 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 642492001035 ABC-ATPase subunit interface; other site 642492001036 dimer interface [polypeptide binding]; other site 642492001037 putative PBP binding regions; other site 642492001038 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492001039 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 642492001040 Cupin domain; Region: Cupin_2; cl09118 642492001041 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492001042 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001043 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 642492001044 putative dimer interface [polypeptide binding]; other site 642492001045 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492001046 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492001047 putative active site [active] 642492001048 putative metal binding site [ion binding]; other site 642492001049 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 642492001050 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 642492001051 Walker A/P-loop; other site 642492001052 ATP binding site [chemical binding]; other site 642492001053 Q-loop/lid; other site 642492001054 ABC transporter signature motif; other site 642492001055 Walker B; other site 642492001056 D-loop; other site 642492001057 H-loop/switch region; other site 642492001058 NIL domain; Region: NIL; cl09633 642492001059 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 642492001060 dimer interface [polypeptide binding]; other site 642492001061 conserved gate region; other site 642492001062 ABC-ATPase subunit interface; other site 642492001063 NMT1-like family; Region: NMT1_2; cl15260 642492001064 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 642492001065 amidohydrolase; Region: amidohydrolases; TIGR01891 642492001066 metal binding site [ion binding]; metal-binding site 642492001067 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 642492001068 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 642492001069 S-adenosylmethionine binding site [chemical binding]; other site 642492001070 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 642492001071 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 642492001072 S-adenosylmethionine binding site [chemical binding]; other site 642492001073 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 642492001074 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 642492001075 metal binding site [ion binding]; metal-binding site 642492001076 dimer interface [polypeptide binding]; other site 642492001077 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 642492001078 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492001079 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 642492001080 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 642492001081 DNA binding site [nucleotide binding] 642492001082 catalytic residue [active] 642492001083 H2TH interface [polypeptide binding]; other site 642492001084 putative catalytic residues [active] 642492001085 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 642492001086 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492001087 Helix-turn-helix domains; Region: HTH; cl00088 642492001088 Helix-turn-helix domains; Region: HTH; cl00088 642492001089 Pirin-related protein [General function prediction only]; Region: COG1741 642492001090 Cupin domain; Region: Cupin_2; cl09118 642492001091 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 642492001092 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492001093 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492001094 DNA binding residues [nucleotide binding] 642492001095 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 642492001096 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492001097 DNA binding residues [nucleotide binding] 642492001098 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 642492001099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492001100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492001101 Family description; Region: UvrD_C_2; cl15862 642492001102 MatE; Region: MatE; cl10513 642492001103 UbiA prenyltransferase family; Region: UbiA; cl00337 642492001104 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 642492001105 active site 642492001106 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 642492001107 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 642492001108 active site 642492001109 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492001110 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 642492001111 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 642492001112 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492001113 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 642492001114 Domain of unknown function DUF; Region: DUF204; pfam02659 642492001115 Domain of unknown function DUF; Region: DUF204; pfam02659 642492001116 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492001117 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 642492001118 active site 642492001119 phosphorylation site [posttranslational modification] 642492001120 intermolecular recognition site; other site 642492001121 dimerization interface [polypeptide binding]; other site 642492001122 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 642492001123 DNA binding site [nucleotide binding] 642492001124 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001125 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 642492001126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001127 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 642492001128 ATP binding site [chemical binding]; other site 642492001129 Mg2+ binding site [ion binding]; other site 642492001130 G-X-G motif; other site 642492001131 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492001132 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492001133 Walker A/P-loop; other site 642492001134 ATP binding site [chemical binding]; other site 642492001135 Q-loop/lid; other site 642492001136 ABC transporter signature motif; other site 642492001137 Walker B; other site 642492001138 D-loop; other site 642492001139 H-loop/switch region; other site 642492001140 FtsX-like permease family; Region: FtsX; cl15850 642492001141 transcriptional regulator EpsA; Region: EpsA; TIGR03020 642492001142 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 642492001143 DNA binding residues [nucleotide binding] 642492001144 dimerization interface [polypeptide binding]; other site 642492001145 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 642492001146 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 642492001147 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 642492001148 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 642492001149 urea carboxylase; Region: urea_carbox; TIGR02712 642492001150 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492001151 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492001152 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 642492001153 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 642492001154 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 642492001155 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 642492001156 carboxyltransferase (CT) interaction site; other site 642492001157 biotinylation site [posttranslational modification]; other site 642492001158 allophanate hydrolase; Provisional; Region: PRK08186 642492001159 Amidase; Region: Amidase; cl11426 642492001160 Nitrogen regulatory protein P-II; Region: P-II; cl00412 642492001161 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001162 Nitrogen regulatory protein P-II; Region: P-II; cl00412 642492001163 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001164 NMT1-like family; Region: NMT1_2; cl15260 642492001165 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 642492001166 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492001167 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 642492001168 dimer interface [polypeptide binding]; other site 642492001169 conserved gate region; other site 642492001170 putative PBP binding loops; other site 642492001171 ABC-ATPase subunit interface; other site 642492001172 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492001173 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 642492001174 Walker A/P-loop; other site 642492001175 ATP binding site [chemical binding]; other site 642492001176 Q-loop/lid; other site 642492001177 ABC transporter signature motif; other site 642492001178 Walker B; other site 642492001179 D-loop; other site 642492001180 H-loop/switch region; other site 642492001181 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492001182 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 642492001183 active site 642492001184 multimer interface [polypeptide binding]; other site 642492001185 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 642492001186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492001187 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 642492001188 DNA binding residues [nucleotide binding] 642492001189 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 642492001190 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 642492001191 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 642492001192 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 642492001193 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492001194 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492001195 TOBE domain; Region: TOBE_2; cl01440 642492001196 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492001197 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492001198 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 642492001199 dimer interface [polypeptide binding]; other site 642492001200 conserved gate region; other site 642492001201 putative PBP binding loops; other site 642492001202 ABC-ATPase subunit interface; other site 642492001203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492001204 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 642492001205 Walker A/P-loop; other site 642492001206 ATP binding site [chemical binding]; other site 642492001207 Q-loop/lid; other site 642492001208 ABC transporter signature motif; other site 642492001209 Walker B; other site 642492001210 D-loop; other site 642492001211 H-loop/switch region; other site 642492001212 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 642492001213 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 642492001214 Nucleotide-binding sites [chemical binding]; other site 642492001215 Walker A motif; other site 642492001216 Switch I region of nucleotide binding site; other site 642492001217 Fe4S4 binding sites [ion binding]; other site 642492001218 Switch II region of nucleotide binding site; other site 642492001219 Nitrogen regulatory protein P-II; Region: P-II; cl00412 642492001220 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001221 Nitrogen regulatory protein P-II; Region: P-II; cl00412 642492001222 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001223 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 642492001224 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001225 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 642492001226 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001227 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 642492001228 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 642492001229 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 642492001230 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001231 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 642492001232 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 642492001233 FeS/SAM binding site; other site 642492001234 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 642492001235 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 642492001236 dimer interface [polypeptide binding]; other site 642492001237 [2Fe-2S] cluster binding site [ion binding]; other site 642492001238 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 642492001239 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 642492001240 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 642492001241 active site 642492001242 catalytic residues [active] 642492001243 metal binding site [ion binding]; metal-binding site 642492001244 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; pfam09582 642492001245 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 642492001246 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 642492001247 putative ligand binding site [chemical binding]; other site 642492001248 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 642492001249 TM-ABC transporter signature motif; other site 642492001250 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 642492001251 TM-ABC transporter signature motif; other site 642492001252 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 642492001253 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 642492001254 Walker A/P-loop; other site 642492001255 ATP binding site [chemical binding]; other site 642492001256 Q-loop/lid; other site 642492001257 ABC transporter signature motif; other site 642492001258 Walker B; other site 642492001259 D-loop; other site 642492001260 H-loop/switch region; other site 642492001261 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 642492001262 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 642492001263 Walker A/P-loop; other site 642492001264 ATP binding site [chemical binding]; other site 642492001265 Q-loop/lid; other site 642492001266 ABC transporter signature motif; other site 642492001267 Walker B; other site 642492001268 D-loop; other site 642492001269 H-loop/switch region; other site 642492001270 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492001271 MatE; Region: MatE; cl10513 642492001272 MatE; Region: MatE; cl10513 642492001273 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 642492001274 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 642492001275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492001276 homodimer interface [polypeptide binding]; other site 642492001277 catalytic residue [active] 642492001278 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 642492001279 metal binding site [ion binding]; metal-binding site 642492001280 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 642492001281 glycerol kinase; Provisional; Region: glpK; PRK00047 642492001282 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 642492001283 N- and C-terminal domain interface [polypeptide binding]; other site 642492001284 active site 642492001285 MgATP binding site [chemical binding]; other site 642492001286 catalytic site [active] 642492001287 metal binding site [ion binding]; metal-binding site 642492001288 glycerol binding site [chemical binding]; other site 642492001289 homotetramer interface [polypeptide binding]; other site 642492001290 homodimer interface [polypeptide binding]; other site 642492001291 FBP binding site [chemical binding]; other site 642492001292 protein IIAGlc interface [polypeptide binding]; other site 642492001293 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 642492001294 SAP domain; Region: SAP; cl02640 642492001295 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 642492001296 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 642492001297 active site 642492001298 multimer interface [polypeptide binding]; other site 642492001299 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 642492001300 predicted active site [active] 642492001301 catalytic triad [active] 642492001302 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 642492001303 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 642492001304 Cupin domain; Region: Cupin_2; cl09118 642492001305 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492001306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001308 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 642492001309 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 642492001310 trimer interface [polypeptide binding]; other site 642492001311 active site 642492001312 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 642492001313 catalytic site [active] 642492001314 endoglucanase; Region: PLN02308 642492001315 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492001316 Cellulose binding domain; Region: CBM_3; cl03026 642492001317 Cellulose binding domain; Region: CBM_3; cl03026 642492001318 Predicted membrane protein [Function unknown]; Region: COG2364 642492001319 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 642492001320 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 642492001321 active site 642492001322 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 642492001323 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 642492001324 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 642492001325 ATP binding site [chemical binding]; other site 642492001326 Mg2+ binding site [ion binding]; other site 642492001327 G-X-G motif; other site 642492001328 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 642492001329 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 642492001330 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492001331 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 642492001332 active site 642492001333 phosphorylation site [posttranslational modification] 642492001334 intermolecular recognition site; other site 642492001335 dimerization interface [polypeptide binding]; other site 642492001336 LytTr DNA-binding domain; Region: LytTR; cl04498 642492001337 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 642492001338 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492001339 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 642492001340 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492001341 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001342 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001343 dimer interface [polypeptide binding]; other site 642492001344 putative CheW interface [polypeptide binding]; other site 642492001345 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 642492001346 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492001347 DNA binding site [nucleotide binding] 642492001348 domain linker motif; other site 642492001349 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 642492001350 putative dimerization interface [polypeptide binding]; other site 642492001351 putative ligand binding site [chemical binding]; other site 642492001352 L-arabinose isomerase; Provisional; Region: PRK02929 642492001353 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 642492001354 hexamer (dimer of trimers) interface [polypeptide binding]; other site 642492001355 trimer interface [polypeptide binding]; other site 642492001356 substrate binding site [chemical binding]; other site 642492001357 Mn binding site [ion binding]; other site 642492001358 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 642492001359 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 642492001360 putative N- and C-terminal domain interface [polypeptide binding]; other site 642492001361 putative active site [active] 642492001362 putative MgATP binding site [chemical binding]; other site 642492001363 catalytic site [active] 642492001364 metal binding site [ion binding]; metal-binding site 642492001365 putative carbohydrate binding site [chemical binding]; other site 642492001366 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 642492001367 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 642492001368 intersubunit interface [polypeptide binding]; other site 642492001369 active site 642492001370 Zn2+ binding site [ion binding]; other site 642492001371 Response regulator receiver domain; Region: Response_reg; pfam00072 642492001372 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 642492001373 active site 642492001374 phosphorylation site [posttranslational modification] 642492001375 intermolecular recognition site; other site 642492001376 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 642492001377 dimerization interface [polypeptide binding]; other site 642492001378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001381 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001382 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492001383 Histidine kinase; Region: His_kinase; pfam06580 642492001384 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 642492001385 ATP binding site [chemical binding]; other site 642492001386 Mg2+ binding site [ion binding]; other site 642492001387 G-X-G motif; other site 642492001388 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 642492001389 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 642492001390 putative ligand binding site [chemical binding]; other site 642492001391 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 642492001392 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 642492001393 Walker A/P-loop; other site 642492001394 ATP binding site [chemical binding]; other site 642492001395 Q-loop/lid; other site 642492001396 ABC transporter signature motif; other site 642492001397 Walker B; other site 642492001398 D-loop; other site 642492001399 H-loop/switch region; other site 642492001400 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 642492001401 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 642492001402 TM-ABC transporter signature motif; other site 642492001403 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 642492001404 TM-ABC transporter signature motif; other site 642492001405 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492001406 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492001407 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 642492001408 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492001409 Walker A/P-loop; other site 642492001410 ATP binding site [chemical binding]; other site 642492001411 Q-loop/lid; other site 642492001412 ABC transporter signature motif; other site 642492001413 Walker B; other site 642492001414 D-loop; other site 642492001415 H-loop/switch region; other site 642492001416 TOBE domain; Region: TOBE_2; cl01440 642492001417 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 642492001418 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 642492001419 dimer interface [polypeptide binding]; other site 642492001420 conserved gate region; other site 642492001421 putative PBP binding loops; other site 642492001422 ABC-ATPase subunit interface; other site 642492001423 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492001424 Histidine kinase; Region: His_kinase; pfam06580 642492001425 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 642492001426 ATP binding site [chemical binding]; other site 642492001427 Mg2+ binding site [ion binding]; other site 642492001428 G-X-G motif; other site 642492001429 Response regulator receiver domain; Region: Response_reg; pfam00072 642492001430 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 642492001431 active site 642492001432 phosphorylation site [posttranslational modification] 642492001433 intermolecular recognition site; other site 642492001434 dimerization interface [polypeptide binding]; other site 642492001435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001436 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001438 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001439 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001440 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492001441 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492001442 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492001443 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492001444 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 642492001445 DOMON-like type 9 carbohydrate binding module of xylanases; Region: CBM9_like_1; cd00005 642492001446 Ca binding site [ion binding]; other site 642492001447 carbohydrate binding site [chemical binding]; other site 642492001448 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001449 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001450 Helix-turn-helix domains; Region: HTH; cl00088 642492001451 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 642492001452 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 642492001453 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 642492001454 hexamer (dimer of trimers) interface [polypeptide binding]; other site 642492001455 trimer interface [polypeptide binding]; other site 642492001456 substrate binding site [chemical binding]; other site 642492001457 Mn binding site [ion binding]; other site 642492001458 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492001459 Histidine kinase; Region: His_kinase; pfam06580 642492001460 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 642492001461 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 642492001462 active site 642492001463 phosphorylation site [posttranslational modification] 642492001464 intermolecular recognition site; other site 642492001465 dimerization interface [polypeptide binding]; other site 642492001466 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492001467 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492001468 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 642492001469 dimer interface [polypeptide binding]; other site 642492001470 conserved gate region; other site 642492001471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492001472 ABC-ATPase subunit interface; other site 642492001473 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492001474 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 642492001475 dimer interface [polypeptide binding]; other site 642492001476 conserved gate region; other site 642492001477 ABC-ATPase subunit interface; other site 642492001478 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 642492001479 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 642492001480 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 642492001481 inhibitor binding site; inhibition site 642492001482 active site 642492001483 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 642492001484 dimerization interface [polypeptide binding]; other site 642492001485 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001486 dimer interface [polypeptide binding]; other site 642492001487 putative CheW interface [polypeptide binding]; other site 642492001488 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 642492001489 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 642492001490 active site 642492001491 catalytic residues [active] 642492001492 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492001493 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 642492001494 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492001495 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 642492001496 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 642492001497 Helix-turn-helix domains; Region: HTH; cl00088 642492001498 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 642492001499 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 642492001500 active site 642492001501 hinge; other site 642492001502 hypothetical protein; Reviewed; Region: PRK09588 642492001503 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 642492001504 RF-1 domain; Region: RF-1; cl02875 642492001505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492001506 Helix-turn-helix domains; Region: HTH; cl00088 642492001507 Helix-turn-helix domains; Region: HTH; cl00088 642492001508 putative transposase OrfB; Reviewed; Region: PHA02517 642492001509 HTH-like domain; Region: HTH_21; pfam13276 642492001510 Integrase core domain; Region: rve; cl01316 642492001511 Integrase core domain; Region: rve_3; cl15866 642492001512 hypothetical protein; Provisional; Region: PRK06062 642492001513 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 642492001514 inhibitor-cofactor binding pocket; inhibition site 642492001515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492001516 catalytic residue [active] 642492001517 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 642492001518 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 642492001519 active site 642492001520 NAD binding site [chemical binding]; other site 642492001521 metal binding site [ion binding]; metal-binding site 642492001522 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492001523 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 642492001524 Walker A/P-loop; other site 642492001525 ATP binding site [chemical binding]; other site 642492001526 Q-loop/lid; other site 642492001527 ABC transporter signature motif; other site 642492001528 Walker B; other site 642492001529 D-loop; other site 642492001530 H-loop/switch region; other site 642492001531 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492001532 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 642492001533 dimer interface [polypeptide binding]; other site 642492001534 conserved gate region; other site 642492001535 putative PBP binding loops; other site 642492001536 ABC-ATPase subunit interface; other site 642492001537 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492001538 NMT1/THI5 like; Region: NMT1; pfam09084 642492001539 NMT1/THI5 like; Region: NMT1; pfam09084 642492001540 phenylhydantoinase; Validated; Region: PRK08323 642492001541 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 642492001542 tetramer interface [polypeptide binding]; other site 642492001543 active site 642492001544 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 642492001545 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 642492001546 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 642492001547 homodimer interface [polypeptide binding]; other site 642492001548 active site 642492001549 FMN binding site [chemical binding]; other site 642492001550 substrate binding site [chemical binding]; other site 642492001551 4Fe-4S binding domain; Region: Fer4; cl02805 642492001552 allantoate amidohydrolase; Reviewed; Region: PRK09290 642492001553 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 642492001554 active site 642492001555 metal binding site [ion binding]; metal-binding site 642492001556 dimer interface [polypeptide binding]; other site 642492001557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001558 Short C-terminal domain; Region: SHOCT; cl01373 642492001559 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 642492001560 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 642492001561 active site 642492001562 catalytic residue [active] 642492001563 dimer interface [polypeptide binding]; other site 642492001564 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492001565 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492001566 metal ion-dependent adhesion site (MIDAS); other site 642492001567 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 642492001568 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 642492001569 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 642492001570 Cupin domain; Region: Cupin_2; cl09118 642492001571 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492001572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001573 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 642492001574 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 642492001575 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 642492001576 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 642492001577 Fibronectin type III-like domain; Region: Fn3-like; cl15273 642492001578 mannonate dehydratase; Provisional; Region: PRK03906 642492001579 mannonate dehydratase; Region: uxuA; TIGR00695 642492001580 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 642492001581 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 642492001582 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 642492001583 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 642492001584 putative active site [active] 642492001585 putative metal binding site [ion binding]; other site 642492001586 Winged helix-turn helix; Region: HTH_29; pfam13551 642492001587 Helix-turn-helix domains; Region: HTH; cl00088 642492001588 Helix-turn-helix domains; Region: HTH; cl00088 642492001589 Winged helix-turn helix; Region: HTH_33; pfam13592 642492001590 Integrase core domain; Region: rve; cl01316 642492001591 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 642492001592 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess...; Region: ABC_MutS-like; cd03283 642492001593 Walker A/P-loop; other site 642492001594 ATP binding site [chemical binding]; other site 642492001595 Q-loop/lid; other site 642492001596 ABC transporter signature motif; other site 642492001597 Walker B; other site 642492001598 D-loop; other site 642492001599 H-loop/switch region; other site 642492001600 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492001601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001602 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492001603 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 642492001604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492001605 DNA-binding site [nucleotide binding]; DNA binding site 642492001606 UTRA domain; Region: UTRA; cl01230 642492001607 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 642492001608 active site 642492001609 intersubunit interactions; other site 642492001610 catalytic residue [active] 642492001611 transketolase; Reviewed; Region: PRK05899 642492001612 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 642492001613 TPP-binding site [chemical binding]; other site 642492001614 dimer interface [polypeptide binding]; other site 642492001615 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 642492001616 PYR/PP interface [polypeptide binding]; other site 642492001617 dimer interface [polypeptide binding]; other site 642492001618 TPP binding site [chemical binding]; other site 642492001619 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492001620 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492001621 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 642492001622 dimerization interface [polypeptide binding]; other site 642492001623 Histidine kinase; Region: His_kinase; pfam06580 642492001624 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 642492001625 ATP binding site [chemical binding]; other site 642492001626 Mg2+ binding site [ion binding]; other site 642492001627 G-X-G motif; other site 642492001628 Response regulator receiver domain; Region: Response_reg; pfam00072 642492001629 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 642492001630 active site 642492001631 phosphorylation site [posttranslational modification] 642492001632 intermolecular recognition site; other site 642492001633 dimerization interface [polypeptide binding]; other site 642492001634 Helix-turn-helix domain; Region: HTH_18; pfam12833 642492001635 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001636 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001638 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492001639 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492001640 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 642492001641 dimer interface [polypeptide binding]; other site 642492001642 conserved gate region; other site 642492001643 putative PBP binding loops; other site 642492001644 ABC-ATPase subunit interface; other site 642492001645 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492001646 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 642492001647 dimer interface [polypeptide binding]; other site 642492001648 conserved gate region; other site 642492001649 putative PBP binding loops; other site 642492001650 ABC-ATPase subunit interface; other site 642492001651 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 642492001652 Cellulose binding domain; Region: CBM_3; cl03026 642492001653 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 642492001654 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 642492001655 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 642492001656 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 642492001657 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 642492001658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 642492001659 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 642492001660 Plant ATP synthase F0; Region: YMF19; cl07975 642492001661 Transposase; Region: DEDD_Tnp_IS110; pfam01548 642492001662 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 642492001663 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 642492001664 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 642492001665 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 642492001666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001667 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 642492001668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492001669 Helix-turn-helix domains; Region: HTH; cl00088 642492001670 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 642492001671 dimerization interface [polypeptide binding]; other site 642492001672 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 642492001673 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 642492001674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001675 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 642492001676 S-adenosylmethionine binding site [chemical binding]; other site 642492001677 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001678 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 642492001679 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492001680 Predicted amidohydrolase [General function prediction only]; Region: COG0388 642492001681 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 642492001682 active site 642492001683 catalytic triad [active] 642492001684 dimer interface [polypeptide binding]; other site 642492001685 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 642492001686 metal ion-dependent adhesion site (MIDAS); other site 642492001687 Tubulin like; Region: Tubulin_2; pfam13809 642492001688 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 642492001689 metal ion-dependent adhesion site (MIDAS); other site 642492001690 Cupin domain; Region: Cupin_2; cl09118 642492001691 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492001692 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001693 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 642492001694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001695 NAD(P) binding site [chemical binding]; other site 642492001696 LDH/MDH dimer interface [polypeptide binding]; other site 642492001697 substrate binding site [chemical binding]; other site 642492001698 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 642492001699 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 642492001700 ATP binding site [chemical binding]; other site 642492001701 Mg++ binding site [ion binding]; other site 642492001702 motif III; other site 642492001703 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 642492001704 nucleotide binding region [chemical binding]; other site 642492001705 ATP-binding site [chemical binding]; other site 642492001706 DbpA RNA binding domain; Region: DbpA; pfam03880 642492001707 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 642492001708 folate binding site [chemical binding]; other site 642492001709 NADP+ binding site [chemical binding]; other site 642492001710 Thymidylate synthase complementing protein; Region: Thy1; cl03630 642492001711 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 642492001712 DNA-binding site [nucleotide binding]; DNA binding site 642492001713 RNA-binding motif; other site 642492001714 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 642492001715 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 642492001716 FAD binding pocket [chemical binding]; other site 642492001717 FAD binding motif [chemical binding]; other site 642492001718 phosphate binding motif [ion binding]; other site 642492001719 beta-alpha-beta structure motif; other site 642492001720 NAD binding pocket [chemical binding]; other site 642492001721 Iron coordination center [ion binding]; other site 642492001722 putative oxidoreductase; Provisional; Region: PRK12831 642492001723 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 642492001724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001726 NAD(P) binding site [chemical binding]; other site 642492001727 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001728 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001729 dimer interface [polypeptide binding]; other site 642492001730 putative CheW interface [polypeptide binding]; other site 642492001731 Haemolysin-III related; Region: HlyIII; cl03831 642492001732 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 642492001733 Cache domain; Region: Cache_1; pfam02743 642492001734 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001736 dimer interface [polypeptide binding]; other site 642492001737 putative CheW interface [polypeptide binding]; other site 642492001738 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 642492001739 active site 642492001740 nucleotide-binding site [chemical binding]; other site 642492001741 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 642492001742 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 642492001743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492001744 catalytic residue [active] 642492001745 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492001746 MatE; Region: MatE; cl10513 642492001747 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 642492001748 Predicted integral membrane protein [Function unknown]; Region: COG0392 642492001749 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 642492001750 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 642492001751 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 642492001752 S-adenosylmethionine binding site [chemical binding]; other site 642492001753 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 642492001754 Rubredoxin; Region: Rubredoxin; pfam00301 642492001755 iron binding site [ion binding]; other site 642492001756 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 642492001757 diiron binding motif [ion binding]; other site 642492001758 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492001759 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492001760 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 642492001761 active site 642492001762 dimer interface [polypeptide binding]; other site 642492001763 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492001764 Zn2+ binding site [ion binding]; other site 642492001765 Mg2+ binding site [ion binding]; other site 642492001766 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 642492001767 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 642492001768 HIGH motif; other site 642492001769 active site 642492001770 KMSKS motif; other site 642492001771 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 642492001772 tRNA binding surface [nucleotide binding]; other site 642492001773 anticodon binding site; other site 642492001774 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 642492001775 dimer interface [polypeptide binding]; other site 642492001776 putative tRNA-binding site [nucleotide binding]; other site 642492001777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492001778 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 642492001779 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 642492001780 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 642492001781 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 642492001782 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492001783 MatE; Region: MatE; cl10513 642492001784 MatE; Region: MatE; cl10513 642492001785 Putative cyclase; Region: Cyclase; cl00814 642492001786 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 642492001787 Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]; Region: PMT1; COG1928 642492001788 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492001789 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492001790 Helix-turn-helix domains; Region: HTH; cl00088 642492001791 Helix-turn-helix domains; Region: HTH; cl00088 642492001792 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 642492001793 Major Facilitator Superfamily; Region: MFS_1; pfam07690 642492001794 putative substrate translocation pore; other site 642492001795 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001796 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001797 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001798 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 642492001799 active site 642492001800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 642492001801 Domain of unknown function (DUF348); Region: DUF348; pfam03990 642492001802 G5 domain; Region: G5; pfam07501 642492001803 3D domain; Region: 3D; cl01439 642492001804 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 642492001805 dimerization interface [polypeptide binding]; other site 642492001806 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 642492001807 dimer interface [polypeptide binding]; other site 642492001808 phosphorylation site [posttranslational modification] 642492001809 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 642492001810 ATP binding site [chemical binding]; other site 642492001811 Mg2+ binding site [ion binding]; other site 642492001812 G-X-G motif; other site 642492001813 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492001814 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 642492001815 active site 642492001816 phosphorylation site [posttranslational modification] 642492001817 intermolecular recognition site; other site 642492001818 dimerization interface [polypeptide binding]; other site 642492001819 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 642492001820 DNA binding site [nucleotide binding] 642492001821 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492001822 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492001823 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 642492001824 Walker A/P-loop; other site 642492001825 ATP binding site [chemical binding]; other site 642492001826 Q-loop/lid; other site 642492001827 ABC transporter signature motif; other site 642492001828 Walker B; other site 642492001829 D-loop; other site 642492001830 H-loop/switch region; other site 642492001831 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001832 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001833 dimer interface [polypeptide binding]; other site 642492001834 putative CheW interface [polypeptide binding]; other site 642492001835 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 642492001836 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492001837 substrate binding pocket [chemical binding]; other site 642492001838 membrane-bound complex binding site; other site 642492001839 hinge residues; other site 642492001840 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 642492001841 dimer interface [polypeptide binding]; other site 642492001842 conserved gate region; other site 642492001843 putative PBP binding loops; other site 642492001844 ABC-ATPase subunit interface; other site 642492001845 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492001846 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 642492001847 Walker A/P-loop; other site 642492001848 ATP binding site [chemical binding]; other site 642492001849 Q-loop/lid; other site 642492001850 ABC transporter signature motif; other site 642492001851 Walker B; other site 642492001852 D-loop; other site 642492001853 H-loop/switch region; other site 642492001854 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492001855 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001856 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001857 dimer interface [polypeptide binding]; other site 642492001858 putative CheW interface [polypeptide binding]; other site 642492001859 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001860 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 642492001861 putative dimer interface [polypeptide binding]; other site 642492001862 catalytic triad [active] 642492001863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001864 maltose O-acetyltransferase; Provisional; Region: PRK10092 642492001865 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 642492001866 active site 642492001867 substrate binding site [chemical binding]; other site 642492001868 trimer interface [polypeptide binding]; other site 642492001869 CoA binding site [chemical binding]; other site 642492001870 Phage Tail Collar Domain; Region: Collar; pfam07484 642492001871 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 642492001872 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 642492001873 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 642492001874 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 642492001875 S-layer homology domain; Region: SLH; pfam00395 642492001876 S-layer homology domain; Region: SLH; pfam00395 642492001877 S-layer homology domain; Region: SLH; pfam00395 642492001878 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 642492001879 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 642492001880 putative binding site residues; other site 642492001881 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 642492001882 ABC-ATPase subunit interface; other site 642492001883 dimer interface [polypeptide binding]; other site 642492001884 putative PBP binding regions; other site 642492001885 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492001886 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492001887 Walker A/P-loop; other site 642492001888 ATP binding site [chemical binding]; other site 642492001889 Q-loop/lid; other site 642492001890 ABC transporter signature motif; other site 642492001891 Walker B; other site 642492001892 D-loop; other site 642492001893 H-loop/switch region; other site 642492001894 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 642492001895 NeuB family; Region: NeuB; cl00496 642492001896 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 642492001897 Prephenate dehydratase; Region: PDT; pfam00800 642492001898 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 642492001899 putative L-Phe binding site [chemical binding]; other site 642492001900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492001901 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 642492001902 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 642492001903 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 642492001904 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 642492001905 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 642492001906 putative substrate translocation pore; other site 642492001907 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001908 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001909 dimer interface [polypeptide binding]; other site 642492001910 putative CheW interface [polypeptide binding]; other site 642492001911 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001913 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492001914 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 642492001915 endoglucanase; Region: PLN02420 642492001916 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492001917 Cellulose binding domain; Region: CBM_3; cl03026 642492001918 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 642492001919 Fibronectin type III-like domain; Region: Fn3-like; cl15273 642492001920 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 642492001921 Cupin domain; Region: Cupin_2; cl09118 642492001922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001923 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001924 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001925 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 642492001926 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492001927 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492001928 Walker A/P-loop; other site 642492001929 ATP binding site [chemical binding]; other site 642492001930 Q-loop/lid; other site 642492001931 ABC transporter signature motif; other site 642492001932 Walker B; other site 642492001933 D-loop; other site 642492001934 H-loop/switch region; other site 642492001935 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492001936 FtsX-like permease family; Region: FtsX; cl15850 642492001937 FtsX-like permease family; Region: FtsX; cl15850 642492001938 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492001939 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 642492001940 active site 642492001941 phosphorylation site [posttranslational modification] 642492001942 intermolecular recognition site; other site 642492001943 dimerization interface [polypeptide binding]; other site 642492001944 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 642492001945 DNA binding site [nucleotide binding] 642492001946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001947 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 642492001948 ATP binding site [chemical binding]; other site 642492001949 Mg2+ binding site [ion binding]; other site 642492001950 G-X-G motif; other site 642492001951 endoglucanase; Region: PLN02420 642492001952 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492001953 Cellulose binding domain; Region: CBM_3; cl03026 642492001954 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 642492001955 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492001956 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 642492001957 motif II; other site 642492001958 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492001959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492001960 active site 642492001961 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 642492001962 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 642492001963 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001964 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001965 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 642492001966 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 642492001967 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 642492001968 shikimate binding site; other site 642492001969 NAD(P) binding site [chemical binding]; other site 642492001970 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 642492001971 Pectate lyase; Region: Pec_lyase_C; cl01593 642492001972 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492001973 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492001974 DNA binding site [nucleotide binding] 642492001975 domain linker motif; other site 642492001976 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 642492001977 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 642492001978 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492001979 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 642492001980 dimer interface [polypeptide binding]; other site 642492001981 conserved gate region; other site 642492001982 putative PBP binding loops; other site 642492001983 ABC-ATPase subunit interface; other site 642492001984 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 642492001985 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 642492001986 dimer interface [polypeptide binding]; other site 642492001987 conserved gate region; other site 642492001988 ABC-ATPase subunit interface; other site 642492001989 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 642492001990 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492001991 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001992 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001993 dimer interface [polypeptide binding]; other site 642492001994 putative CheW interface [polypeptide binding]; other site 642492001995 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 642492001996 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 642492001997 S-layer homology domain; Region: SLH; pfam00395 642492001998 S-layer homology domain; Region: SLH; pfam00395 642492001999 putative efflux protein, MATE family; Region: matE; TIGR00797 642492002000 MatE; Region: MatE; cl10513 642492002001 MatE; Region: MatE; cl10513 642492002002 Repair protein; Region: Repair_PSII; cl01535 642492002003 LemA family; Region: LemA; cl00742 642492002004 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 642492002005 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 642492002006 putative active site [active] 642492002007 heme pocket [chemical binding]; other site 642492002008 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 642492002009 dimer interface [polypeptide binding]; other site 642492002010 phosphorylation site [posttranslational modification] 642492002011 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 642492002012 ATP binding site [chemical binding]; other site 642492002013 Mg2+ binding site [ion binding]; other site 642492002014 G-X-G motif; other site 642492002015 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 642492002016 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 642492002017 chorismate binding enzyme; Region: Chorismate_bind; cl10555 642492002018 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 642492002019 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 642492002020 glutamine binding [chemical binding]; other site 642492002021 catalytic triad [active] 642492002022 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 642492002023 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 642492002024 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 642492002025 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 642492002026 active site 642492002027 ribulose/triose binding site [chemical binding]; other site 642492002028 phosphate binding site [ion binding]; other site 642492002029 substrate (anthranilate) binding pocket [chemical binding]; other site 642492002030 product (indole) binding pocket [chemical binding]; other site 642492002031 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 642492002032 active site 642492002033 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 642492002034 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 642492002035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492002036 catalytic residue [active] 642492002037 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 642492002038 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 642492002039 substrate binding site [chemical binding]; other site 642492002040 active site 642492002041 catalytic residues [active] 642492002042 heterodimer interface [polypeptide binding]; other site 642492002043 Putative esterase; Region: Esterase; pfam00756 642492002044 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492002045 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492002046 endoglucanase; Region: PLN02420 642492002047 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492002048 Cellulose binding domain; Region: CBM_3; cl03026 642492002049 Cellulose binding domain; Region: CBM_3; cl03026 642492002050 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492002051 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492002052 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492002053 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 642492002054 catalytic residues [active] 642492002055 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 642492002056 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492002057 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 642492002058 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 642492002059 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 642492002060 Int/Topo IB signature motif; other site 642492002061 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 642492002062 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 642492002063 active site 642492002064 substrate binding site [chemical binding]; other site 642492002065 catalytic site [active] 642492002066 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492002067 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 642492002068 non-specific DNA binding site [nucleotide binding]; other site 642492002069 salt bridge; other site 642492002070 sequence-specific DNA binding site [nucleotide binding]; other site 642492002071 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492002072 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 642492002073 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 642492002074 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 642492002075 P-loop; other site 642492002076 Magnesium ion binding site [ion binding]; other site 642492002077 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 642492002078 Magnesium ion binding site [ion binding]; other site 642492002079 ParB-like nuclease domain; Region: ParBc; cl02129 642492002080 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 642492002081 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 642492002082 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492002083 cofactor binding site; other site 642492002084 DNA binding site [nucleotide binding] 642492002085 substrate interaction site [chemical binding]; other site 642492002086 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492002087 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 642492002088 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492002089 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 642492002090 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 642492002091 Phage Terminase; Region: Terminase_1; pfam03354 642492002092 Phage-related protein [Function unknown]; Region: COG4695; cl01923 642492002093 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 642492002094 Phage capsid family; Region: Phage_capsid; pfam05065 642492002095 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 642492002096 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 642492002097 Phage-related protein [Function unknown]; Region: COG5412 642492002098 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 642492002099 Holin family; Region: Phage_holin_4; cl01989 642492002100 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 642492002101 amidase catalytic site [active] 642492002102 Zn binding residues [ion binding]; other site 642492002103 substrate binding site [chemical binding]; other site 642492002104 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492002105 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492002106 DNA binding site [nucleotide binding] 642492002107 domain linker motif; other site 642492002108 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 642492002109 putative dimerization interface [polypeptide binding]; other site 642492002110 putative ligand binding site [chemical binding]; other site 642492002111 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 642492002112 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 642492002113 Ca binding site [ion binding]; other site 642492002114 active site 642492002115 catalytic site [active] 642492002116 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 642492002117 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492002118 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 642492002119 active site turn [active] 642492002120 phosphorylation site [posttranslational modification] 642492002121 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 642492002122 putative catalytic site [active] 642492002123 putative metal binding site [ion binding]; other site 642492002124 putative phosphate binding site [ion binding]; other site 642492002125 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 642492002126 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492002127 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 642492002128 Fumarase C-terminus; Region: Fumerase_C; cl00795 642492002129 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 642492002130 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 642492002131 tandem repeat interface [polypeptide binding]; other site 642492002132 oligomer interface [polypeptide binding]; other site 642492002133 active site residues [active] 642492002134 AMP-binding enzyme; Region: AMP-binding; cl15778 642492002135 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 642492002136 AMP-binding enzyme; Region: AMP-binding; cl15778 642492002137 AMP-binding enzyme; Region: AMP-binding; cl15778 642492002138 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 642492002139 ACT domain-containing protein [General function prediction only]; Region: COG4747 642492002140 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 642492002141 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 642492002142 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 642492002143 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492002144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002145 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492002146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002147 dimer interface [polypeptide binding]; other site 642492002148 putative CheW interface [polypeptide binding]; other site 642492002149 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 642492002150 dimerization interface [polypeptide binding]; other site 642492002151 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492002152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002153 dimer interface [polypeptide binding]; other site 642492002154 putative CheW interface [polypeptide binding]; other site 642492002155 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 642492002156 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 642492002157 putative catalytic cysteine [active] 642492002158 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 642492002159 putative active site [active] 642492002160 metal binding site [ion binding]; metal-binding site 642492002161 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 642492002162 DNA binding site [nucleotide binding] 642492002163 Int/Topo IB signature motif; other site 642492002164 active site 642492002165 Domain of unknown function (DUF955); Region: DUF955; cl01076 642492002166 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 642492002167 non-specific DNA binding site [nucleotide binding]; other site 642492002168 salt bridge; other site 642492002169 sequence-specific DNA binding site [nucleotide binding]; other site 642492002170 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492002171 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 642492002172 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 642492002173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002174 AAA domain; Region: AAA_23; pfam13476 642492002175 Walker A/P-loop; other site 642492002176 ATP binding site [chemical binding]; other site 642492002177 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 642492002178 RecT family; Region: RecT; cl04285 642492002179 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 642492002180 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 642492002181 hypothetical protein; Validated; Region: PRK08116 642492002182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002183 Endodeoxyribonuclease RusA; Region: RusA; cl01885 642492002184 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 642492002185 YopX protein; Region: YopX; cl09859 642492002186 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 642492002187 Int/Topo IB signature motif; other site 642492002188 active site 642492002189 DNA binding site [nucleotide binding] 642492002190 Uncharacterized conserved protein [Function unknown]; Region: COG5484 642492002191 Phage terminase small subunit; Region: Phage_terminase; pfam10668 642492002192 Phage terminase large subunit; Region: Terminase_3; cl12054 642492002193 Terminase-like family; Region: Terminase_6; pfam03237 642492002194 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492002195 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 642492002196 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 642492002197 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 642492002198 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 642492002199 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 642492002200 Minor capsid protein; Region: Minor_capsid_2; pfam11114 642492002201 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 642492002202 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492002203 Phage-related protein [Function unknown]; Region: COG5412 642492002204 Haemolysin XhlA; Region: XhlA; pfam10779 642492002205 Bacteriophage holin; Region: Phage_holin_1; cl02344 642492002206 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 642492002207 amidase catalytic site [active] 642492002208 Zn binding residues [ion binding]; other site 642492002209 substrate binding site [chemical binding]; other site 642492002210 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 642492002211 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 642492002212 P-loop; other site 642492002213 Magnesium ion binding site [ion binding]; other site 642492002214 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 642492002215 Magnesium ion binding site [ion binding]; other site 642492002216 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492002217 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 642492002218 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492002219 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002220 dimer interface [polypeptide binding]; other site 642492002221 putative CheW interface [polypeptide binding]; other site 642492002222 flagellin; Provisional; Region: PRK12804 642492002223 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492002224 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 642492002225 seryl-tRNA synthetase; Provisional; Region: PRK05431 642492002226 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 642492002227 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 642492002228 dimer interface [polypeptide binding]; other site 642492002229 active site 642492002230 motif 1; other site 642492002231 motif 2; other site 642492002232 motif 3; other site 642492002233 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 642492002234 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 642492002235 putative active site [active] 642492002236 putative NTP binding site [chemical binding]; other site 642492002237 putative nucleic acid binding site [nucleotide binding]; other site 642492002238 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 642492002239 Nitrogen regulatory protein P-II; Region: P-II; cl00412 642492002240 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492002241 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492002242 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 642492002243 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492002244 S-layer homology domain; Region: SLH; pfam00395 642492002245 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492002246 Helix-turn-helix domains; Region: HTH; cl00088 642492002247 UbiA prenyltransferase family; Region: UbiA; cl00337 642492002248 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492002249 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 642492002250 Int/Topo IB signature motif; other site 642492002251 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 642492002252 non-specific DNA binding site [nucleotide binding]; other site 642492002253 salt bridge; other site 642492002254 sequence-specific DNA binding site [nucleotide binding]; other site 642492002255 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 642492002256 non-specific DNA binding site [nucleotide binding]; other site 642492002257 salt bridge; other site 642492002258 sequence-specific DNA binding site [nucleotide binding]; other site 642492002259 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492002260 Helix-turn-helix domains; Region: HTH; cl00088 642492002261 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002262 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 642492002263 P22 coat protein - gene protein 5; Region: P22_CoatProtein; cl10302 642492002264 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492002265 Phage-related protein [Function unknown]; Region: COG5412 642492002266 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 642492002267 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492002268 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 642492002269 DNA binding residues [nucleotide binding] 642492002270 Winged helix-turn helix; Region: HTH_29; pfam13551 642492002271 Helix-turn-helix domains; Region: HTH; cl00088 642492002272 Helix-turn-helix domains; Region: HTH; cl00088 642492002273 Winged helix-turn helix; Region: HTH_33; pfam13592 642492002274 Integrase core domain; Region: rve; cl01316 642492002275 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 642492002276 dimer interface [polypeptide binding]; other site 642492002277 conserved gate region; other site 642492002278 putative PBP binding loops; other site 642492002279 ABC-ATPase subunit interface; other site 642492002280 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 642492002281 dimer interface [polypeptide binding]; other site 642492002282 conserved gate region; other site 642492002283 putative PBP binding loops; other site 642492002284 ABC-ATPase subunit interface; other site 642492002285 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492002286 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 642492002287 Walker A/P-loop; other site 642492002288 ATP binding site [chemical binding]; other site 642492002289 Q-loop/lid; other site 642492002290 ABC transporter signature motif; other site 642492002291 Walker B; other site 642492002292 D-loop; other site 642492002293 H-loop/switch region; other site 642492002294 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 642492002295 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 642492002296 substrate binding pocket [chemical binding]; other site 642492002297 membrane-bound complex binding site; other site 642492002298 hinge residues; other site 642492002299 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 642492002300 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 642492002301 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 642492002302 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 642492002303 Prominin; Region: Prominin; pfam05478 642492002304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 642492002305 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 642492002306 NodB motif; other site 642492002307 active site 642492002308 catalytic site [active] 642492002309 Zn binding site [ion binding]; other site 642492002310 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 642492002311 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 642492002312 active site 642492002313 catalytic site [active] 642492002314 metal binding site [ion binding]; metal-binding site 642492002315 dimer interface [polypeptide binding]; other site 642492002316 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 642492002317 ApbE family; Region: ApbE; cl00643 642492002318 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 642492002319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492002320 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 642492002321 trimer interface [polypeptide binding]; other site 642492002322 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 642492002323 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 642492002324 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 642492002325 substrate binding pocket [chemical binding]; other site 642492002326 chain length determination region; other site 642492002327 substrate-Mg2+ binding site; other site 642492002328 catalytic residues [active] 642492002329 aspartate-rich region 1; other site 642492002330 active site lid residues [active] 642492002331 aspartate-rich region 2; other site 642492002332 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 642492002333 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492002334 active site 642492002335 motif I; other site 642492002336 motif II; other site 642492002337 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 642492002338 Putative zinc-finger; Region: zf-HC2; cl15806 642492002339 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 642492002340 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492002341 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 642492002342 DNA binding residues [nucleotide binding] 642492002343 signal recognition particle protein SRP54; Region: SRP54_euk; TIGR01425 642492002344 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 642492002345 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 642492002346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492002347 DNA-binding site [nucleotide binding]; DNA binding site 642492002348 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 642492002349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492002350 homodimer interface [polypeptide binding]; other site 642492002351 catalytic residue [active] 642492002352 Response regulator receiver domain; Region: Response_reg; pfam00072 642492002353 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 642492002354 active site 642492002355 phosphorylation site [posttranslational modification] 642492002356 intermolecular recognition site; other site 642492002357 dimerization interface [polypeptide binding]; other site 642492002358 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 642492002359 Pyruvate formate lyase 1; Region: PFL1; cd01678 642492002360 coenzyme A binding site [chemical binding]; other site 642492002361 active site 642492002362 catalytic residues [active] 642492002363 glycine loop; other site 642492002364 HEAT repeats; Region: HEAT_2; pfam13646 642492002365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492002366 RDD family; Region: RDD; cl00746 642492002367 OpgC protein; Region: OpgC_C; cl00792 642492002368 OpgC protein; Region: OpgC_C; cl00792 642492002369 LytTr DNA-binding domain; Region: LytTR; cl04498 642492002370 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492002371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002372 Walker A/P-loop; other site 642492002373 ATP binding site [chemical binding]; other site 642492002374 Q-loop/lid; other site 642492002375 ABC transporter signature motif; other site 642492002376 Walker B; other site 642492002377 D-loop; other site 642492002378 H-loop/switch region; other site 642492002379 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 642492002380 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 642492002381 putative ligand binding site [chemical binding]; other site 642492002382 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 642492002383 TM-ABC transporter signature motif; other site 642492002384 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 642492002385 TM-ABC transporter signature motif; other site 642492002386 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 642492002387 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 642492002388 Walker A/P-loop; other site 642492002389 ATP binding site [chemical binding]; other site 642492002390 Q-loop/lid; other site 642492002391 ABC transporter signature motif; other site 642492002392 Walker B; other site 642492002393 D-loop; other site 642492002394 H-loop/switch region; other site 642492002395 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 642492002396 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 642492002397 Walker A/P-loop; other site 642492002398 ATP binding site [chemical binding]; other site 642492002399 Q-loop/lid; other site 642492002400 ABC transporter signature motif; other site 642492002401 Walker B; other site 642492002402 D-loop; other site 642492002403 H-loop/switch region; other site 642492002404 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 642492002405 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492002406 DNA binding residues [nucleotide binding] 642492002407 drug binding residues [chemical binding]; other site 642492002408 dimer interface [polypeptide binding]; other site 642492002409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002410 Walker A/P-loop; other site 642492002411 ATP binding site [chemical binding]; other site 642492002412 Q-loop/lid; other site 642492002413 ABC transporter signature motif; other site 642492002414 Walker B; other site 642492002415 D-loop; other site 642492002416 H-loop/switch region; other site 642492002417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002418 Walker A/P-loop; other site 642492002419 ATP binding site [chemical binding]; other site 642492002420 Q-loop/lid; other site 642492002421 ABC transporter signature motif; other site 642492002422 Walker B; other site 642492002423 D-loop; other site 642492002424 H-loop/switch region; other site 642492002425 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492002426 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 642492002427 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 642492002428 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 642492002429 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 642492002430 RNA binding site [nucleotide binding]; other site 642492002431 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 642492002432 Int/Topo IB signature motif; other site 642492002433 Domain of unknown function (DUF955); Region: DUF955; cl01076 642492002434 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 642492002435 non-specific DNA binding site [nucleotide binding]; other site 642492002436 salt bridge; other site 642492002437 sequence-specific DNA binding site [nucleotide binding]; other site 642492002438 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 642492002439 non-specific DNA binding site [nucleotide binding]; other site 642492002440 salt bridge; other site 642492002441 sequence-specific DNA binding site [nucleotide binding]; other site 642492002442 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492002443 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 642492002444 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 642492002445 HNH endonuclease; Region: HNH_3; pfam13392 642492002446 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492002447 Hef nuclease; Provisional; Region: PRK13766 642492002448 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 642492002449 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 642492002450 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 642492002451 dimer interface [polypeptide binding]; other site 642492002452 ssDNA binding site [nucleotide binding]; other site 642492002453 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492002454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002455 Walker A motif; other site 642492002456 ATP binding site [chemical binding]; other site 642492002457 Walker B motif; other site 642492002458 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492002459 DNA binding site [nucleotide binding] 642492002460 substrate interaction site [chemical binding]; other site 642492002461 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492002462 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 642492002463 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 642492002464 DNA binding residues [nucleotide binding] 642492002465 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 642492002466 DNA-binding interface [nucleotide binding]; DNA binding site 642492002467 Protein of unknown function (DUF464); Region: DUF464; cl01080 642492002468 Phage terminase large subunit; Region: Terminase_3; cl12054 642492002469 Terminase-like family; Region: Terminase_6; pfam03237 642492002470 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 642492002471 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492002472 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492002473 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 642492002474 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 642492002475 Phage capsid family; Region: Phage_capsid; pfam05065 642492002476 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 642492002477 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492002478 Phage-related protein [Function unknown]; Region: COG5412 642492002479 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 642492002480 amidase catalytic site [active] 642492002481 Zn binding residues [ion binding]; other site 642492002482 substrate binding site [chemical binding]; other site 642492002483 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 642492002484 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492002485 Zn2+ binding site [ion binding]; other site 642492002486 Mg2+ binding site [ion binding]; other site 642492002487 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492002488 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 642492002489 active site 642492002490 metal binding site [ion binding]; metal-binding site 642492002491 Restriction endonuclease; Region: Mrr_cat; cl00516 642492002492 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 642492002493 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 642492002494 ligand binding site [chemical binding]; other site 642492002495 flexible hinge region; other site 642492002496 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 642492002497 non-specific DNA interactions [nucleotide binding]; other site 642492002498 DNA binding site [nucleotide binding] 642492002499 sequence specific DNA binding site [nucleotide binding]; other site 642492002500 putative cAMP binding site [chemical binding]; other site 642492002501 DHHW protein; Region: DHHW; pfam14286 642492002502 DHHW protein; Region: DHHW; pfam14286 642492002503 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 642492002504 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 642492002505 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 642492002506 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 642492002507 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492002508 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 642492002509 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 642492002510 PYR/PP interface [polypeptide binding]; other site 642492002511 TPP binding site [chemical binding]; other site 642492002512 dimer interface [polypeptide binding]; other site 642492002513 substrate binding site [chemical binding]; other site 642492002514 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 642492002515 Domain of unknown function; Region: EKR; cl11037 642492002516 4Fe-4S binding domain; Region: Fer4; cl02805 642492002517 4Fe-4S binding domain; Region: Fer4; cl02805 642492002518 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 642492002519 TPP-binding site [chemical binding]; other site 642492002520 dimer interface [polypeptide binding]; other site 642492002521 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 642492002522 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 642492002523 AP (apurinic/apyrimidinic) site pocket; other site 642492002524 Metal-binding active site; metal-binding site 642492002525 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 642492002526 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 642492002527 dimer interface [polypeptide binding]; other site 642492002528 PYR/PP interface [polypeptide binding]; other site 642492002529 TPP binding site [chemical binding]; other site 642492002530 substrate binding site [chemical binding]; other site 642492002531 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 642492002532 Domain of unknown function; Region: EKR; cl11037 642492002533 4Fe-4S binding domain; Region: Fer4; cl02805 642492002534 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 642492002535 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 642492002536 TPP-binding site [chemical binding]; other site 642492002537 dimer interface [polypeptide binding]; other site 642492002538 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 642492002539 putative catalytic site [active] 642492002540 putative metal binding site [ion binding]; other site 642492002541 putative phosphate binding site [ion binding]; other site 642492002542 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 642492002543 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 642492002544 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492002545 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 642492002546 dimer interface [polypeptide binding]; other site 642492002547 conserved gate region; other site 642492002548 ABC-ATPase subunit interface; other site 642492002549 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492002550 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 642492002551 dimer interface [polypeptide binding]; other site 642492002552 conserved gate region; other site 642492002553 ABC-ATPase subunit interface; other site 642492002554 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492002555 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492002556 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492002557 putative alpha-glucosidase; Provisional; Region: PRK10658 642492002558 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 642492002559 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 642492002560 active site 642492002561 homotrimer interface [polypeptide binding]; other site 642492002562 catalytic site [active] 642492002563 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 642492002564 Histidine kinase; Region: His_kinase; pfam06580 642492002565 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 642492002566 ATP binding site [chemical binding]; other site 642492002567 Mg2+ binding site [ion binding]; other site 642492002568 G-X-G motif; other site 642492002569 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 642492002570 active site 642492002571 phosphorylation site [posttranslational modification] 642492002572 intermolecular recognition site; other site 642492002573 dimerization interface [polypeptide binding]; other site 642492002574 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492002575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492002576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 642492002577 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 642492002578 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 642492002579 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 642492002580 dinuclear metal binding motif [ion binding]; other site 642492002581 transposase/IS protein; Provisional; Region: PRK09183 642492002582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002583 Helix-turn-helix domains; Region: HTH; cl00088 642492002584 Integrase core domain; Region: rve; cl01316 642492002585 pyruvate kinase; Provisional; Region: PRK06354 642492002586 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 642492002587 domain interfaces; other site 642492002588 active site 642492002589 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 642492002590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 642492002591 Nucleoside recognition; Region: Gate; cl00486 642492002592 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 642492002593 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 642492002594 nucleoside/Zn binding site; other site 642492002595 dimer interface [polypeptide binding]; other site 642492002596 catalytic motif [active] 642492002597 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492002598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492002599 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 642492002600 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 642492002601 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 642492002602 Walker A motif; other site 642492002603 ATP binding site [chemical binding]; other site 642492002604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002605 Walker B motif; other site 642492002606 arginine finger; other site 642492002607 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 642492002608 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 642492002609 recombination protein RecR; Reviewed; Region: recR; PRK00076 642492002610 RecR protein; Region: RecR; pfam02132 642492002611 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 642492002612 putative active site [active] 642492002613 putative metal-binding site [ion binding]; other site 642492002614 tetramer interface [polypeptide binding]; other site 642492002615 Cache domain; Region: Cache_1; pfam02743 642492002616 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492002617 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492002618 PAS fold; Region: PAS_3; pfam08447 642492002619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492002620 metal binding site [ion binding]; metal-binding site 642492002621 active site 642492002622 I-site; other site 642492002623 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 642492002624 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492002625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002626 Walker A/P-loop; other site 642492002627 ATP binding site [chemical binding]; other site 642492002628 Q-loop/lid; other site 642492002629 ABC transporter signature motif; other site 642492002630 Walker B; other site 642492002631 D-loop; other site 642492002632 H-loop/switch region; other site 642492002633 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492002634 V-type ATP synthase subunit I; Validated; Region: PRK05771 642492002635 Flagellar protein FliS; Region: FliS; cl00654 642492002636 flagellin; Provisional; Region: PRK12804 642492002637 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492002638 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 642492002639 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492002640 SCP-2 sterol transfer family; Region: SCP2; cl01225 642492002641 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 642492002642 HIT family signature motif; other site 642492002643 catalytic residue [active] 642492002644 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 642492002645 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 642492002646 active site 642492002647 dimer interface [polypeptide binding]; other site 642492002648 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 642492002649 Ligand Binding Site [chemical binding]; other site 642492002650 Molecular Tunnel; other site 642492002651 Malic enzyme, N-terminal domain; Region: malic; pfam00390 642492002652 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 642492002653 putative NAD(P) binding site [chemical binding]; other site 642492002654 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 642492002655 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 642492002656 active site 642492002657 homodimer interface [polypeptide binding]; other site 642492002658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002659 dimer interface [polypeptide binding]; other site 642492002660 putative CheW interface [polypeptide binding]; other site 642492002661 CTP synthetase; Validated; Region: pyrG; PRK05380 642492002662 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 642492002663 Catalytic site [active] 642492002664 active site 642492002665 UTP binding site [chemical binding]; other site 642492002666 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 642492002667 active site 642492002668 putative oxyanion hole; other site 642492002669 catalytic triad [active] 642492002670 Domain of unknown function (DUF368); Region: DUF368; cl00893 642492002671 Helix-turn-helix domains; Region: HTH; cl00088 642492002672 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492002673 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 642492002674 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 642492002675 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 642492002676 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 642492002677 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 642492002678 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 642492002679 active site 642492002680 dimer interface [polypeptide binding]; other site 642492002681 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 642492002682 dimer interface [polypeptide binding]; other site 642492002683 active site 642492002684 Helix-turn-helix domains; Region: HTH; cl00088 642492002685 3H domain; Region: 3H; pfam02829 642492002686 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492002687 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 642492002688 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 642492002689 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 642492002690 putative peptidoglycan binding site; other site 642492002691 glycogen synthase; Provisional; Region: glgA; PRK00654 642492002692 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 642492002693 ADP-binding pocket [chemical binding]; other site 642492002694 homodimer interface [polypeptide binding]; other site 642492002695 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 642492002696 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 642492002697 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 642492002698 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 642492002699 dimer interface [polypeptide binding]; other site 642492002700 ssDNA binding site [nucleotide binding]; other site 642492002701 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492002702 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 642492002703 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 642492002704 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 642492002705 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 642492002706 DHH family; Region: DHH; pfam01368 642492002707 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 642492002708 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 642492002709 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 642492002710 replicative DNA helicase; Region: DnaB; TIGR00665 642492002711 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 642492002712 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 642492002713 Walker A motif; other site 642492002714 ATP binding site [chemical binding]; other site 642492002715 Walker B motif; other site 642492002716 DNA binding loops [nucleotide binding] 642492002717 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 642492002718 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492002719 Coenzyme A binding pocket [chemical binding]; other site 642492002720 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 642492002721 DNA binding residues [nucleotide binding] 642492002722 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 642492002723 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 642492002724 FeS/SAM binding site; other site 642492002725 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 642492002726 Pyruvate formate lyase 1; Region: PFL1; cd01678 642492002727 coenzyme A binding site [chemical binding]; other site 642492002728 active site 642492002729 catalytic residues [active] 642492002730 glycine loop; other site 642492002731 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 642492002732 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492002733 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 642492002734 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 642492002735 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 642492002736 DRTGG domain; Region: DRTGG; cl12147 642492002737 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 642492002738 DHHA2 domain; Region: DHHA2; pfam02833 642492002739 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 642492002740 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 642492002741 GDP-binding site [chemical binding]; other site 642492002742 ACT binding site; other site 642492002743 IMP binding site; other site 642492002744 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 642492002745 Glyco_18 domain; Region: Glyco_18; smart00636 642492002746 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 642492002747 active site 642492002748 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492002749 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 642492002750 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492002751 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 642492002752 active site 642492002753 metal binding site [ion binding]; metal-binding site 642492002754 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 642492002755 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492002756 DNA-binding site [nucleotide binding]; DNA binding site 642492002757 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 642492002758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492002759 homodimer interface [polypeptide binding]; other site 642492002760 catalytic residue [active] 642492002761 DNA replication protein DnaC; Validated; Region: PRK06835 642492002762 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 642492002763 Walker A motif; other site 642492002764 ATP binding site [chemical binding]; other site 642492002765 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 642492002766 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 642492002767 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492002768 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 642492002769 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492002770 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492002771 pur operon repressor; Provisional; Region: PRK09213 642492002772 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 642492002773 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492002774 active site 642492002775 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 642492002776 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 642492002777 ligand binding site; other site 642492002778 oligomer interface; other site 642492002779 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 642492002780 dimer interface [polypeptide binding]; other site 642492002781 N-terminal domain interface [polypeptide binding]; other site 642492002782 sulfate 1 binding site; other site 642492002783 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 642492002784 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 642492002785 ligand binding site; other site 642492002786 oligomer interface; other site 642492002787 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 642492002788 dimer interface [polypeptide binding]; other site 642492002789 N-terminal domain interface [polypeptide binding]; other site 642492002790 sulfate 1 binding site; other site 642492002791 SpoVG; Region: SpoVG; cl00915 642492002792 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 642492002793 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 642492002794 Substrate binding site; other site 642492002795 Mg++ binding site; other site 642492002796 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 642492002797 active site 642492002798 substrate binding site [chemical binding]; other site 642492002799 CoA binding site [chemical binding]; other site 642492002800 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 642492002801 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 642492002802 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492002803 active site 642492002804 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 642492002805 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 642492002806 putative active site [active] 642492002807 catalytic residue [active] 642492002808 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 642492002809 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 642492002810 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 642492002811 ATP binding site [chemical binding]; other site 642492002812 putative Mg++ binding site [ion binding]; other site 642492002813 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 642492002814 nucleotide binding region [chemical binding]; other site 642492002815 ATP-binding site [chemical binding]; other site 642492002816 TRCF domain; Region: TRCF; cl04088 642492002817 PPIC-type PPIASE domain; Region: Rotamase; cl08278 642492002818 stage V sporulation protein T; Region: spore_V_T; TIGR02851 642492002819 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 642492002820 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 642492002821 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 642492002822 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 642492002823 IHF - DNA interface [nucleotide binding]; other site 642492002824 IHF dimer interface [polypeptide binding]; other site 642492002825 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 642492002826 RNA binding surface [nucleotide binding]; other site 642492002827 YabP family; Region: YabP; cl06766 642492002828 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 642492002829 Septum formation initiator; Region: DivIC; cl11433 642492002830 peptide chain release factor 2; Validated; Region: prfB; PRK00578 642492002831 RF-1 domain; Region: RF-1; cl02875 642492002832 RF-1 domain; Region: RF-1; cl02875 642492002833 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 642492002834 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 642492002835 active site 642492002836 dimerization interface [polypeptide binding]; other site 642492002837 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 642492002838 active site 642492002839 metal binding site [ion binding]; metal-binding site 642492002840 homotetramer interface [polypeptide binding]; other site 642492002841 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 642492002842 putative active site [active] 642492002843 putative metal binding residues [ion binding]; other site 642492002844 signature motif; other site 642492002845 putative dimer interface [polypeptide binding]; other site 642492002846 putative phosphate binding site [ion binding]; other site 642492002847 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 642492002848 active site 642492002849 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 642492002850 active site 642492002851 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 642492002852 DJ-1 family protein; Region: not_thiJ; TIGR01383 642492002853 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 642492002854 conserved cys residue [active] 642492002855 trigger factor; Provisional; Region: tig; PRK01490 642492002856 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 642492002857 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 642492002858 Clp protease; Region: CLP_protease; pfam00574 642492002859 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 642492002860 oligomer interface [polypeptide binding]; other site 642492002861 active site residues [active] 642492002862 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 642492002863 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 642492002864 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002865 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 642492002866 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 642492002867 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 642492002868 Walker A motif; other site 642492002869 ATP binding site [chemical binding]; other site 642492002870 Walker B motif; other site 642492002871 arginine finger; other site 642492002872 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 642492002873 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 642492002874 Found in ATP-dependent protease La (LON); Region: LON; smart00464 642492002875 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 642492002876 Walker A motif; other site 642492002877 ATP binding site [chemical binding]; other site 642492002878 Walker B motif; other site 642492002879 arginine finger; other site 642492002880 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 642492002881 Predicted GTPase [General function prediction only]; Region: COG0218 642492002882 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 642492002883 G1 box; other site 642492002884 GTP/Mg2+ binding site [chemical binding]; other site 642492002885 Switch I region; other site 642492002886 G2 box; other site 642492002887 G3 box; other site 642492002888 Switch II region; other site 642492002889 G4 box; other site 642492002890 G5 box; other site 642492002891 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 642492002892 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 642492002893 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492002894 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 642492002895 active site 642492002896 phosphorylation site [posttranslational modification] 642492002897 intermolecular recognition site; other site 642492002898 dimerization interface [polypeptide binding]; other site 642492002899 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 642492002900 DNA binding site [nucleotide binding] 642492002901 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492002902 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 642492002903 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 642492002904 dimer interface [polypeptide binding]; other site 642492002905 phosphorylation site [posttranslational modification] 642492002906 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 642492002907 ATP binding site [chemical binding]; other site 642492002908 Mg2+ binding site [ion binding]; other site 642492002909 G-X-G motif; other site 642492002910 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 642492002911 THUMP domain; Region: THUMP; cl12076 642492002912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492002913 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492002914 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492002915 dimerization interface [polypeptide binding]; other site 642492002916 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492002917 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492002918 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 642492002919 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 642492002920 dimer interface [polypeptide binding]; other site 642492002921 conserved gate region; other site 642492002922 putative PBP binding loops; other site 642492002923 ABC-ATPase subunit interface; other site 642492002924 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 642492002925 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 642492002926 dimer interface [polypeptide binding]; other site 642492002927 conserved gate region; other site 642492002928 putative PBP binding loops; other site 642492002929 ABC-ATPase subunit interface; other site 642492002930 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 642492002931 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 642492002932 Walker A/P-loop; other site 642492002933 ATP binding site [chemical binding]; other site 642492002934 Q-loop/lid; other site 642492002935 ABC transporter signature motif; other site 642492002936 Walker B; other site 642492002937 D-loop; other site 642492002938 H-loop/switch region; other site 642492002939 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 642492002940 PhoU domain; Region: PhoU; pfam01895 642492002941 PhoU domain; Region: PhoU; pfam01895 642492002942 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 642492002943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492002944 active site 642492002945 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492002946 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492002947 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492002948 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002949 dimer interface [polypeptide binding]; other site 642492002950 putative CheW interface [polypeptide binding]; other site 642492002951 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 642492002952 intersubunit interface [polypeptide binding]; other site 642492002953 active site 642492002954 catalytic residue [active] 642492002955 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 642492002956 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 642492002957 Response regulator receiver domain; Region: Response_reg; pfam00072 642492002958 active site 642492002959 phosphorylation site [posttranslational modification] 642492002960 intermolecular recognition site; other site 642492002961 dimerization interface [polypeptide binding]; other site 642492002962 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 642492002963 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 642492002964 dimer interface [polypeptide binding]; other site 642492002965 motif 1; other site 642492002966 active site 642492002967 motif 2; other site 642492002968 motif 3; other site 642492002969 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 642492002970 anticodon binding site; other site 642492002971 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 642492002972 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 642492002973 dimer interface [polypeptide binding]; other site 642492002974 anticodon binding site; other site 642492002975 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 642492002976 homodimer interface [polypeptide binding]; other site 642492002977 motif 1; other site 642492002978 active site 642492002979 motif 2; other site 642492002980 GAD domain; Region: GAD; pfam02938 642492002981 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 642492002982 motif 3; other site 642492002983 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 642492002984 active site 642492002985 catalytic site [active] 642492002986 alpha-amylase; Reviewed; Region: malS; PRK09505 642492002987 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 642492002988 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 642492002989 active site 642492002990 catalytic tetrad [active] 642492002991 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 642492002992 pantoate--beta-alanine ligase; Region: panC; TIGR00018 642492002993 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492002994 active site 642492002995 nucleotide binding site [chemical binding]; other site 642492002996 HIGH motif; other site 642492002997 KMSKS motif; other site 642492002998 ThiC family; Region: ThiC; cl08031 642492002999 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 642492003000 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 642492003001 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 642492003002 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 642492003003 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 642492003004 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492003005 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492003006 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003007 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 642492003008 ABC-ATPase subunit interface; other site 642492003009 dimer interface [polypeptide binding]; other site 642492003010 putative PBP binding regions; other site 642492003011 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 642492003012 ABC-ATPase subunit interface; other site 642492003013 dimer interface [polypeptide binding]; other site 642492003014 putative PBP binding regions; other site 642492003015 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 642492003016 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492003017 Walker A/P-loop; other site 642492003018 ATP binding site [chemical binding]; other site 642492003019 Q-loop/lid; other site 642492003020 ABC transporter signature motif; other site 642492003021 Walker B; other site 642492003022 D-loop; other site 642492003023 H-loop/switch region; other site 642492003024 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 642492003025 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 642492003026 putative ligand binding residues [chemical binding]; other site 642492003027 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 642492003028 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 642492003029 dimerization interface [polypeptide binding]; other site 642492003030 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492003031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492003032 dimer interface [polypeptide binding]; other site 642492003033 putative CheW interface [polypeptide binding]; other site 642492003034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 642492003035 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 642492003036 active site 642492003037 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492003038 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 642492003039 Int/Topo IB signature motif; other site 642492003040 active site 642492003041 DNA binding site [nucleotide binding] 642492003042 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492003043 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492003044 large terminase protein; Provisional; Region: 17; PHA02533 642492003045 Terminase-like family; Region: Terminase_6; pfam03237 642492003046 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492003047 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 642492003048 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 642492003049 Transposase domain (DUF772); Region: DUF772; cl15789 642492003050 Transposase domain (DUF772); Region: DUF772; cl15789 642492003051 S-layer homology domain; Region: SLH; pfam00395 642492003052 S-layer homology domain; Region: SLH; pfam00395 642492003053 hybrid cluster protein; Provisional; Region: PRK05290 642492003054 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 642492003055 ACS interaction site; other site 642492003056 CODH interaction site; other site 642492003057 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 642492003058 hybrid metal cluster; other site 642492003059 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 642492003060 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 642492003061 ligand binding site [chemical binding]; other site 642492003062 Helix-turn-helix domains; Region: HTH; cl00088 642492003063 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 642492003064 active site 642492003065 Zn binding site [ion binding]; other site 642492003066 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492003067 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 642492003068 active site residue [active] 642492003069 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 642492003070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492003071 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492003072 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 642492003073 active site residue [active] 642492003074 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492003075 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 642492003076 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492003077 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 642492003078 active site turn [active] 642492003079 phosphorylation site [posttranslational modification] 642492003080 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 642492003081 HPr interaction site; other site 642492003082 glycerol kinase (GK) interaction site [polypeptide binding]; other site 642492003083 active site 642492003084 phosphorylation site [posttranslational modification] 642492003085 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 642492003086 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 642492003087 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 642492003088 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492003089 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 642492003090 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492003091 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 642492003092 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 642492003093 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 642492003094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492003095 YhhN-like protein; Region: YhhN; cl01505 642492003096 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 642492003097 synthetase active site [active] 642492003098 NTP binding site [chemical binding]; other site 642492003099 metal binding site [ion binding]; metal-binding site 642492003100 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492003101 argininosuccinate lyase; Provisional; Region: PRK02186 642492003102 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492003103 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492003104 Glucuronate isomerase; Region: UxaC; cl00829 642492003105 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492003106 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492003107 DNA binding site [nucleotide binding] 642492003108 domain linker motif; other site 642492003109 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 642492003110 dimerization interface [polypeptide binding]; other site 642492003111 ligand binding site [chemical binding]; other site 642492003112 altronate oxidoreductase; Provisional; Region: PRK03643 642492003113 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 642492003114 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 642492003115 SAF domain; Region: SAF; cl00555 642492003116 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 642492003117 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 642492003118 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 642492003119 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 642492003120 NADP binding site [chemical binding]; other site 642492003121 homodimer interface [polypeptide binding]; other site 642492003122 active site 642492003123 KduI/IolB family; Region: KduI; cl01508 642492003124 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 642492003125 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 642492003126 DNA interaction; other site 642492003127 Metal-binding active site; metal-binding site 642492003128 Pectinesterase; Region: Pectinesterase; cl01911 642492003129 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492003130 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492003131 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492003132 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492003133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492003134 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492003135 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 642492003136 dimer interface [polypeptide binding]; other site 642492003137 conserved gate region; other site 642492003138 putative PBP binding loops; other site 642492003139 ABC-ATPase subunit interface; other site 642492003140 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 642492003141 Cupin domain; Region: Cupin_2; cl09118 642492003142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003143 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492003144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003145 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 642492003146 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 642492003147 putative metal binding site [ion binding]; other site 642492003148 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 642492003149 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 642492003150 putative metal binding site [ion binding]; other site 642492003151 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 642492003152 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 642492003153 putative metal binding site [ion binding]; other site 642492003154 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492003155 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 642492003156 active site 642492003157 phosphorylation site [posttranslational modification] 642492003158 intermolecular recognition site; other site 642492003159 dimerization interface [polypeptide binding]; other site 642492003160 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 642492003161 DNA binding site [nucleotide binding] 642492003162 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 642492003163 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492003164 active site 642492003165 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 642492003166 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 642492003167 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492003168 active site 642492003169 motif I; other site 642492003170 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 642492003171 motif II; other site 642492003172 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492003173 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 642492003174 Walker A/P-loop; other site 642492003175 ATP binding site [chemical binding]; other site 642492003176 Q-loop/lid; other site 642492003177 ABC transporter signature motif; other site 642492003178 Walker B; other site 642492003179 D-loop; other site 642492003180 H-loop/switch region; other site 642492003181 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 642492003182 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 642492003183 substrate binding pocket [chemical binding]; other site 642492003184 membrane-bound complex binding site; other site 642492003185 hinge residues; other site 642492003186 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 642492003187 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 642492003188 dimer interface [polypeptide binding]; other site 642492003189 conserved gate region; other site 642492003190 putative PBP binding loops; other site 642492003191 ABC-ATPase subunit interface; other site 642492003192 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 642492003193 dimer interface [polypeptide binding]; other site 642492003194 conserved gate region; other site 642492003195 putative PBP binding loops; other site 642492003196 ABC-ATPase subunit interface; other site 642492003197 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492003198 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 642492003199 Protein of unknown function DUF45; Region: DUF45; cl00636 642492003200 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 642492003201 active site 642492003202 catalytic residues [active] 642492003203 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 642492003204 dimer interface [polypeptide binding]; other site 642492003205 phosphorylation site [posttranslational modification] 642492003206 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 642492003207 ATP binding site [chemical binding]; other site 642492003208 Mg2+ binding site [ion binding]; other site 642492003209 G-X-G motif; other site 642492003210 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492003211 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 642492003212 active site 642492003213 phosphorylation site [posttranslational modification] 642492003214 intermolecular recognition site; other site 642492003215 dimerization interface [polypeptide binding]; other site 642492003216 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 642492003217 DNA binding site [nucleotide binding] 642492003218 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 642492003219 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 642492003220 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 642492003221 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 642492003222 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 642492003223 putative deacylase active site [active] 642492003224 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 642492003225 active site 642492003226 DNA binding site [nucleotide binding] 642492003227 putative phosphate binding site [ion binding]; other site 642492003228 putative catalytic site [active] 642492003229 metal binding site A [ion binding]; metal-binding site 642492003230 AP binding site [nucleotide binding]; other site 642492003231 metal binding site B [ion binding]; metal-binding site 642492003232 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492003233 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 642492003234 dimer interface [polypeptide binding]; other site 642492003235 active site 642492003236 metal binding site [ion binding]; metal-binding site 642492003237 glutathione binding site [chemical binding]; other site 642492003238 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492003239 threonine dehydratase; Provisional; Region: PRK08198 642492003240 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 642492003241 tetramer interface [polypeptide binding]; other site 642492003242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003243 catalytic residue [active] 642492003244 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 642492003245 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 642492003246 DHH family; Region: DHH; pfam01368 642492003247 Helix-turn-helix domains; Region: HTH; cl00088 642492003248 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 642492003249 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 642492003250 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 642492003251 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 642492003252 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 642492003253 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492003254 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 642492003255 Uncharacterized conserved protein [Function unknown]; Region: COG2966 642492003256 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 642492003257 MoxR-like ATPases [General function prediction only]; Region: COG0714 642492003258 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 642492003259 Walker A motif; other site 642492003260 ATP binding site [chemical binding]; other site 642492003261 Walker B motif; other site 642492003262 arginine finger; other site 642492003263 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 642492003264 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492003265 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 642492003266 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 642492003267 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 642492003268 dimer interface [polypeptide binding]; other site 642492003269 PYR/PP interface [polypeptide binding]; other site 642492003270 TPP binding site [chemical binding]; other site 642492003271 substrate binding site [chemical binding]; other site 642492003272 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 642492003273 TPP-binding site; other site 642492003274 4Fe-4S binding domain; Region: Fer4; cl02805 642492003275 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 642492003276 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 642492003277 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 642492003278 dimer interface [polypeptide binding]; other site 642492003279 glycine-pyridoxal phosphate binding site [chemical binding]; other site 642492003280 active site 642492003281 folate binding site [chemical binding]; other site 642492003282 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 642492003283 elongation factor G; Reviewed; Region: PRK12740 642492003284 G1 box; other site 642492003285 putative GEF interaction site [polypeptide binding]; other site 642492003286 GTP/Mg2+ binding site [chemical binding]; other site 642492003287 Switch I region; other site 642492003288 G2 box; other site 642492003289 G3 box; other site 642492003290 Switch II region; other site 642492003291 G4 box; other site 642492003292 G5 box; other site 642492003293 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 642492003294 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 642492003295 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 642492003296 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492003297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003298 DNA-binding site [nucleotide binding]; DNA binding site 642492003299 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492003300 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492003301 Walker A/P-loop; other site 642492003302 ATP binding site [chemical binding]; other site 642492003303 Q-loop/lid; other site 642492003304 ABC transporter signature motif; other site 642492003305 Walker B; other site 642492003306 D-loop; other site 642492003307 H-loop/switch region; other site 642492003308 Transglycosylase; Region: Transgly; cl07896 642492003309 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 642492003310 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492003311 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 642492003312 Predicted membrane protein [General function prediction only]; Region: COG4194 642492003313 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492003314 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003315 DNA-binding site [nucleotide binding]; DNA binding site 642492003316 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 642492003317 classical (c) SDRs; Region: SDR_c; cd05233 642492003318 NAD(P) binding site [chemical binding]; other site 642492003319 active site 642492003320 peroxiredoxin; Provisional; Region: PRK13189 642492003321 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 642492003322 dimer interface [polypeptide binding]; other site 642492003323 decamer (pentamer of dimers) interface [polypeptide binding]; other site 642492003324 catalytic triad [active] 642492003325 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492003326 active site 642492003327 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 642492003328 ligand binding site [chemical binding]; other site 642492003329 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492003330 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492003331 Walker A/P-loop; other site 642492003332 ATP binding site [chemical binding]; other site 642492003333 Q-loop/lid; other site 642492003334 ABC transporter signature motif; other site 642492003335 Walker B; other site 642492003336 D-loop; other site 642492003337 H-loop/switch region; other site 642492003338 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003339 DNA-binding site [nucleotide binding]; DNA binding site 642492003340 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 642492003341 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 642492003342 dimer interface [polypeptide binding]; other site 642492003343 active site 642492003344 metal binding site [ion binding]; metal-binding site 642492003345 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 642492003346 nudix motif; other site 642492003347 Sodium:solute symporter family; Region: SSF; cl00456 642492003348 cytosine deaminase; Provisional; Region: PRK09230 642492003349 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 642492003350 active site 642492003351 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 642492003352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 642492003353 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 642492003354 Fic/DOC family; Region: Fic; cl00960 642492003355 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 642492003356 putative active site [active] 642492003357 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 642492003358 MgtE intracellular N domain; Region: MgtE_N; cl15244 642492003359 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 642492003360 Divalent cation transporter; Region: MgtE; cl00786 642492003361 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 642492003362 peptide binding site [polypeptide binding]; other site 642492003363 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 642492003364 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 642492003365 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 642492003366 dimer interface [polypeptide binding]; other site 642492003367 conserved gate region; other site 642492003368 putative PBP binding loops; other site 642492003369 ABC-ATPase subunit interface; other site 642492003370 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 642492003371 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 642492003372 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 642492003373 dimer interface [polypeptide binding]; other site 642492003374 conserved gate region; other site 642492003375 putative PBP binding loops; other site 642492003376 ABC-ATPase subunit interface; other site 642492003377 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 642492003378 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 642492003379 Walker A/P-loop; other site 642492003380 ATP binding site [chemical binding]; other site 642492003381 Q-loop/lid; other site 642492003382 ABC transporter signature motif; other site 642492003383 Walker B; other site 642492003384 D-loop; other site 642492003385 H-loop/switch region; other site 642492003386 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492003387 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 642492003388 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 642492003389 Walker A/P-loop; other site 642492003390 ATP binding site [chemical binding]; other site 642492003391 Q-loop/lid; other site 642492003392 ABC transporter signature motif; other site 642492003393 Walker B; other site 642492003394 D-loop; other site 642492003395 H-loop/switch region; other site 642492003396 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492003397 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 642492003398 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 642492003399 catalytic triad [active] 642492003400 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 642492003401 B12 binding site [chemical binding]; other site 642492003402 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 642492003403 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492003404 FeS/SAM binding site; other site 642492003405 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 642492003406 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 642492003407 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 642492003408 FeS/SAM binding site; other site 642492003409 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 642492003410 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 642492003411 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 642492003412 FeS/SAM binding site; other site 642492003413 GH3 auxin-responsive promoter; Region: GH3; cl04006 642492003414 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 642492003415 B12 binding site [chemical binding]; other site 642492003416 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 642492003417 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 642492003418 FeS/SAM binding site; other site 642492003419 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 642492003420 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 642492003421 Helix-turn-helix domains; Region: HTH; cl00088 642492003422 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 642492003423 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 642492003424 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 642492003425 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 642492003426 HIGH motif; other site 642492003427 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 642492003428 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 642492003429 active site 642492003430 KMSKS motif; other site 642492003431 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 642492003432 tRNA binding surface [nucleotide binding]; other site 642492003433 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492003434 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 642492003435 substrate binding site [chemical binding]; other site 642492003436 dimer interface [polypeptide binding]; other site 642492003437 ATP binding site [chemical binding]; other site 642492003438 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 642492003439 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 642492003440 Transposase domain (DUF772); Region: DUF772; cl15789 642492003441 Transposase domain (DUF772); Region: DUF772; cl15789 642492003442 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 642492003443 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 642492003444 active site 642492003445 catalytic residues [active] 642492003446 metal binding site [ion binding]; metal-binding site 642492003447 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 642492003448 tartrate dehydrogenase; Provisional; Region: PRK08194 642492003449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003450 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492003451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003452 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 642492003453 active site 642492003454 catalytic site [active] 642492003455 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 642492003456 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 642492003457 putative substrate translocation pore; other site 642492003458 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492003459 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492003460 putative active site [active] 642492003461 putative metal binding site [ion binding]; other site 642492003462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492003463 active site 642492003464 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 642492003465 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492003466 active site 642492003467 HIGH motif; other site 642492003468 nucleotide binding site [chemical binding]; other site 642492003469 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 642492003470 KMSKS motif; other site 642492003471 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 642492003472 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 642492003473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492003474 Walker A/P-loop; other site 642492003475 ATP binding site [chemical binding]; other site 642492003476 Q-loop/lid; other site 642492003477 ABC transporter signature motif; other site 642492003478 Walker B; other site 642492003479 D-loop; other site 642492003480 H-loop/switch region; other site 642492003481 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 642492003482 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492003483 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492003484 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 642492003485 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 642492003486 catalytic core [active] 642492003487 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 642492003488 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 642492003489 ligand binding site [chemical binding]; other site 642492003490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492003491 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 642492003492 dimerization interface [polypeptide binding]; other site 642492003493 Histidine kinase; Region: His_kinase; pfam06580 642492003494 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 642492003495 ATP binding site [chemical binding]; other site 642492003496 Mg2+ binding site [ion binding]; other site 642492003497 G-X-G motif; other site 642492003498 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 642492003499 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 642492003500 active site 642492003501 phosphorylation site [posttranslational modification] 642492003502 intermolecular recognition site; other site 642492003503 dimerization interface [polypeptide binding]; other site 642492003504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003505 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003506 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 642492003507 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 642492003508 putative ligand binding site [chemical binding]; other site 642492003509 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 642492003510 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 642492003511 putative ligand binding site [chemical binding]; other site 642492003512 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 642492003513 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 642492003514 Walker A/P-loop; other site 642492003515 ATP binding site [chemical binding]; other site 642492003516 Q-loop/lid; other site 642492003517 ABC transporter signature motif; other site 642492003518 Walker B; other site 642492003519 D-loop; other site 642492003520 H-loop/switch region; other site 642492003521 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 642492003522 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 642492003523 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 642492003524 TM-ABC transporter signature motif; other site 642492003525 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 642492003526 DHH family; Region: DHH; pfam01368 642492003527 DHHA1 domain; Region: DHHA1; pfam02272 642492003528 serine O-acetyltransferase; Region: cysE; TIGR01172 642492003529 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 642492003530 trimer interface [polypeptide binding]; other site 642492003531 active site 642492003532 substrate binding site [chemical binding]; other site 642492003533 CoA binding site [chemical binding]; other site 642492003534 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 642492003535 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 642492003536 active site 642492003537 HIGH motif; other site 642492003538 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 642492003539 KMSKS motif; other site 642492003540 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 642492003541 tRNA binding surface [nucleotide binding]; other site 642492003542 anticodon binding site; other site 642492003543 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 642492003544 dimerization interface [polypeptide binding]; other site 642492003545 active site 642492003546 metal binding site [ion binding]; metal-binding site 642492003547 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 642492003548 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 642492003549 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 642492003550 RNA polymerase factor sigma-70; Validated; Region: PRK08295 642492003551 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492003552 Helix-turn-helix domains; Region: HTH; cl00088 642492003553 DNA binding residues [nucleotide binding] 642492003554 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 642492003555 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 642492003556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003557 catalytic residue [active] 642492003558 hypothetical protein; Provisional; Region: PRK05590 642492003559 SEC-C motif; Region: SEC-C; pfam02810 642492003560 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 642492003561 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; pfam01992 642492003562 V-type ATP synthase subunit I; Validated; Region: PRK05771 642492003563 ATP synthase subunit C; Region: ATP-synt_C; cl00466 642492003564 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 642492003565 Plant ATP synthase F0; Region: YMF19; cl07975 642492003566 ATP synthase (E/31 kDa) subunit; Region: vATP-synt_E; pfam01991 642492003567 V-type ATP synthase subunit A; Provisional; Region: PRK04192 642492003568 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 642492003569 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 642492003570 Walker A motif/ATP binding site; other site 642492003571 Walker B motif; other site 642492003572 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492003573 V-type ATP synthase subunit B; Provisional; Region: PRK04196 642492003574 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 642492003575 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 642492003576 Walker A motif homologous position; other site 642492003577 Walker B motif; other site 642492003578 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492003579 ATP synthase subunit D; Region: ATP-synt_D; cl00613 642492003580 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 642492003581 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 642492003582 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492003583 metal binding site 2 [ion binding]; metal-binding site 642492003584 putative DNA binding helix; other site 642492003585 metal binding site 1 [ion binding]; metal-binding site 642492003586 dimer interface [polypeptide binding]; other site 642492003587 structural Zn2+ binding site [ion binding]; other site 642492003588 Stage II sporulation protein; Region: SpoIID; pfam08486 642492003589 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 642492003590 Peptidase family M48; Region: Peptidase_M48; cl12018 642492003591 DNA polymerase II large subunit; Validated; Region: PRK04023 642492003592 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 642492003593 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 642492003594 GAF domain; Region: GAF; cl15785 642492003595 GAF domain; Region: GAF_2; pfam13185 642492003596 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492003597 metal binding site [ion binding]; metal-binding site 642492003598 active site 642492003599 I-site; other site 642492003600 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 642492003601 helicase 45; Provisional; Region: PTZ00424 642492003602 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 642492003603 ATP binding site [chemical binding]; other site 642492003604 Mg++ binding site [ion binding]; other site 642492003605 motif III; other site 642492003606 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 642492003607 nucleotide binding region [chemical binding]; other site 642492003608 ATP-binding site [chemical binding]; other site 642492003609 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 642492003610 MgtC family; Region: MgtC; pfam02308 642492003611 S-layer homology domain; Region: SLH; pfam00395 642492003612 S-layer homology domain; Region: SLH; pfam00395 642492003613 Arginase family; Region: Arginase; cl00306 642492003614 spermidine synthase; Provisional; Region: PRK00811 642492003615 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 642492003616 S-adenosylmethionine binding site [chemical binding]; other site 642492003617 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 642492003618 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 642492003619 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492003620 substrate binding site [chemical binding]; other site 642492003621 ATP binding site [chemical binding]; other site 642492003622 S-layer homology domain; Region: SLH; pfam00395 642492003623 RecX family; Region: RecX; cl00936 642492003624 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 642492003625 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 642492003626 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 642492003627 DNA binding site [nucleotide binding] 642492003628 active site 642492003629 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 642492003630 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492003631 putative active site [active] 642492003632 putative metal binding site [ion binding]; other site 642492003633 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 642492003634 heterotetramer interface [polypeptide binding]; other site 642492003635 active site pocket [active] 642492003636 cleavage site 642492003637 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 642492003638 feedback inhibition sensing region; other site 642492003639 homohexameric interface [polypeptide binding]; other site 642492003640 nucleotide binding site [chemical binding]; other site 642492003641 N-acetyl-L-glutamate binding site [chemical binding]; other site 642492003642 acetylornithine aminotransferase; Provisional; Region: PRK02627 642492003643 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 642492003644 inhibitor-cofactor binding pocket; inhibition site 642492003645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003646 catalytic residue [active] 642492003647 Protein of unknown function (DUF554); Region: DUF554; cl00784 642492003648 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 642492003649 active site 642492003650 metal binding site [ion binding]; metal-binding site 642492003651 NlpC/P60 family; Region: NLPC_P60; cl11438 642492003652 NMT1-like family; Region: NMT1_2; cl15260 642492003653 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492003654 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492003655 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 642492003656 Walker A/P-loop; other site 642492003657 ATP binding site [chemical binding]; other site 642492003658 Q-loop/lid; other site 642492003659 ABC transporter signature motif; other site 642492003660 Walker B; other site 642492003661 D-loop; other site 642492003662 H-loop/switch region; other site 642492003663 putative glycosyl transferase; Provisional; Region: PRK10073 642492003664 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 642492003665 active site 642492003666 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492003667 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 642492003668 active site 642492003669 HIGH motif; other site 642492003670 nucleotide binding site [chemical binding]; other site 642492003671 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 642492003672 active site 642492003673 KMSKS motif; other site 642492003674 NlpC/P60 family; Region: NLPC_P60; cl11438 642492003675 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 642492003676 Int/Topo IB signature motif; other site 642492003677 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 642492003678 non-specific DNA binding site [nucleotide binding]; other site 642492003679 salt bridge; other site 642492003680 sequence-specific DNA binding site [nucleotide binding]; other site 642492003681 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 642492003682 non-specific DNA binding site [nucleotide binding]; other site 642492003683 salt bridge; other site 642492003684 sequence-specific DNA binding site [nucleotide binding]; other site 642492003685 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492003686 D5 N terminal like; Region: D5_N; cl07360 642492003687 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 642492003688 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492003689 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 642492003690 catalytic residues [active] 642492003691 catalytic nucleophile [active] 642492003692 Presynaptic Site I dimer interface [polypeptide binding]; other site 642492003693 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 642492003694 Synaptic Flat tetramer interface [polypeptide binding]; other site 642492003695 Synaptic Site I dimer interface [polypeptide binding]; other site 642492003696 DNA binding site [nucleotide binding] 642492003697 Helix-turn-helix domains; Region: HTH; cl00088 642492003698 DNA-binding interface [nucleotide binding]; DNA binding site 642492003699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492003700 Helix-turn-helix domains; Region: HTH; cl00088 642492003701 putative transposase OrfB; Reviewed; Region: PHA02517 642492003702 HTH-like domain; Region: HTH_21; pfam13276 642492003703 Integrase core domain; Region: rve; cl01316 642492003704 Integrase core domain; Region: rve_3; cl15866 642492003705 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 642492003706 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 642492003707 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 642492003708 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 642492003709 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492003710 HTH-like domain; Region: HTH_21; pfam13276 642492003711 CAAX protease self-immunity; Region: Abi; cl00558 642492003712 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 642492003713 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 642492003714 motif II; other site 642492003715 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 642492003716 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 642492003717 GAF domain; Region: GAF; cl15785 642492003718 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492003719 metal binding site [ion binding]; metal-binding site 642492003720 active site 642492003721 I-site; other site 642492003722 Tetratricopeptide repeat; Region: TPR_16; pfam13432 642492003723 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 642492003724 binding surface 642492003725 Tetratricopeptide repeat; Region: TPR_16; pfam13432 642492003726 TPR motif; other site 642492003727 PAP2_like_3 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria and archaea, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_3; cd03393 642492003728 active site 642492003729 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492003730 Transcriptional regulators [Transcription]; Region: FadR; COG2186 642492003731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003732 DNA-binding site [nucleotide binding]; DNA binding site 642492003733 FCD domain; Region: FCD; cl11656 642492003734 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 642492003735 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 642492003736 Walker A motif; other site 642492003737 ATP binding site [chemical binding]; other site 642492003738 Walker B motif; other site 642492003739 arginine finger; other site 642492003740 Peptidase family M41; Region: Peptidase_M41; pfam01434 642492003741 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492003742 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492003743 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 642492003744 active site 642492003745 phosphorylation site [posttranslational modification] 642492003746 intermolecular recognition site; other site 642492003747 dimerization interface [polypeptide binding]; other site 642492003748 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 642492003749 DNA binding site [nucleotide binding] 642492003750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492003751 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 642492003752 dimer interface [polypeptide binding]; other site 642492003753 phosphorylation site [posttranslational modification] 642492003754 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 642492003755 ATP binding site [chemical binding]; other site 642492003756 Mg2+ binding site [ion binding]; other site 642492003757 G-X-G motif; other site 642492003758 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 642492003759 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 642492003760 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 642492003761 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 642492003762 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492003763 Double zinc ribbon; Region: DZR; pfam12773 642492003764 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492003765 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 642492003766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492003767 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 642492003768 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 642492003769 dimer interface [polypeptide binding]; other site 642492003770 conserved gate region; other site 642492003771 putative PBP binding loops; other site 642492003772 ABC-ATPase subunit interface; other site 642492003773 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 642492003774 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 642492003775 dimer interface [polypeptide binding]; other site 642492003776 conserved gate region; other site 642492003777 putative PBP binding loops; other site 642492003778 ABC-ATPase subunit interface; other site 642492003779 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 642492003780 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 642492003781 Walker A/P-loop; other site 642492003782 ATP binding site [chemical binding]; other site 642492003783 Q-loop/lid; other site 642492003784 ABC transporter signature motif; other site 642492003785 Walker B; other site 642492003786 D-loop; other site 642492003787 H-loop/switch region; other site 642492003788 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492003789 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 642492003790 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 642492003791 Walker A/P-loop; other site 642492003792 ATP binding site [chemical binding]; other site 642492003793 Q-loop/lid; other site 642492003794 ABC transporter signature motif; other site 642492003795 Walker B; other site 642492003796 D-loop; other site 642492003797 H-loop/switch region; other site 642492003798 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492003799 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 642492003800 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 642492003801 peptide binding site [polypeptide binding]; other site 642492003802 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 642492003803 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 642492003804 hypothetical protein; Provisional; Region: PRK08185 642492003805 intersubunit interface [polypeptide binding]; other site 642492003806 active site 642492003807 zinc binding site [ion binding]; other site 642492003808 Na+ binding site [ion binding]; other site 642492003809 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492003810 transmembrane helices; other site 642492003811 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 642492003812 binding surface 642492003813 TPR repeat; Region: TPR_11; pfam13414 642492003814 TPR motif; other site 642492003815 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 642492003816 binding surface 642492003817 TPR motif; other site 642492003818 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 642492003819 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492003820 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 642492003821 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 642492003822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003823 homodimer interface [polypeptide binding]; other site 642492003824 catalytic residue [active] 642492003825 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 642492003826 dimerization interface [polypeptide binding]; other site 642492003827 putative DNA binding site [nucleotide binding]; other site 642492003828 putative Zn2+ binding site [ion binding]; other site 642492003829 TPR repeat; Region: TPR_11; pfam13414 642492003830 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 642492003831 binding surface 642492003832 TPR motif; other site 642492003833 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 642492003834 binding surface 642492003835 Tetratricopeptide repeat; Region: TPR_16; pfam13432 642492003836 TPR motif; other site 642492003837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 642492003838 Tetratricopeptide repeat; Region: TPR_6; pfam13174 642492003839 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 642492003840 anti sigma factor interaction site; other site 642492003841 regulatory phosphorylation site [posttranslational modification]; other site 642492003842 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 642492003843 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 642492003844 ATP binding site [chemical binding]; other site 642492003845 Mg2+ binding site [ion binding]; other site 642492003846 G-X-G motif; other site 642492003847 sporulation sigma factor SigF; Validated; Region: PRK05572 642492003848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492003849 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492003850 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 642492003851 DNA binding residues [nucleotide binding] 642492003852 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 642492003853 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 642492003854 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 642492003855 dimerization interface [polypeptide binding]; other site 642492003856 ATP binding site [chemical binding]; other site 642492003857 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 642492003858 dimerization interface [polypeptide binding]; other site 642492003859 ATP binding site [chemical binding]; other site 642492003860 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 642492003861 putative active site [active] 642492003862 catalytic triad [active] 642492003863 AIR carboxylase; Region: AIRC; cl00310 642492003864 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 642492003865 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 642492003866 ATP binding site [chemical binding]; other site 642492003867 active site 642492003868 substrate binding site [chemical binding]; other site 642492003869 amidophosphoribosyltransferase; Provisional; Region: PRK05793 642492003870 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 642492003871 active site 642492003872 tetramer interface [polypeptide binding]; other site 642492003873 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492003874 active site 642492003875 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 642492003876 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 642492003877 dimerization interface [polypeptide binding]; other site 642492003878 putative ATP binding site [chemical binding]; other site 642492003879 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 642492003880 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 642492003881 active site 642492003882 substrate binding site [chemical binding]; other site 642492003883 cosubstrate binding site; other site 642492003884 catalytic site [active] 642492003885 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 642492003886 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 642492003887 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492003888 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 642492003889 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492003890 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 642492003891 Int/Topo IB signature motif; other site 642492003892 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 642492003893 non-specific DNA binding site [nucleotide binding]; other site 642492003894 salt bridge; other site 642492003895 sequence-specific DNA binding site [nucleotide binding]; other site 642492003896 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 642492003897 non-specific DNA binding site [nucleotide binding]; other site 642492003898 salt bridge; other site 642492003899 sequence-specific DNA binding site [nucleotide binding]; other site 642492003900 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492003901 hypothetical protein; Validated; Region: PRK08116 642492003902 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 642492003903 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492003904 Phage-related tail protein [Function unknown]; Region: COG5283 642492003905 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492003906 chromosome segregation protein; Provisional; Region: PRK03918 642492003907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 642492003908 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492003909 Protein of unknown function, DUF488; Region: DUF488; cl01246 642492003910 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492003911 Bacterial SH3 domain; Region: SH3_3; cl02551 642492003912 Bacterial SH3 domain; Region: SH3_3; cl02551 642492003913 NlpC/P60 family; Region: NLPC_P60; cl11438 642492003914 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 642492003915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003916 DNA-binding site [nucleotide binding]; DNA binding site 642492003917 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 642492003918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003919 homodimer interface [polypeptide binding]; other site 642492003920 catalytic residue [active] 642492003921 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 642492003922 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 642492003923 dimer interface [polypeptide binding]; other site 642492003924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003925 catalytic residue [active] 642492003926 serine O-acetyltransferase; Region: cysE; TIGR01172 642492003927 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 642492003928 trimer interface [polypeptide binding]; other site 642492003929 active site 642492003930 substrate binding site [chemical binding]; other site 642492003931 CoA binding site [chemical binding]; other site 642492003932 AzlC protein; Region: AzlC; cl00570 642492003933 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 642492003934 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 642492003935 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 642492003936 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 642492003937 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 642492003938 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492003939 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 642492003940 OpgC protein; Region: OpgC_C; cl00792 642492003941 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 642492003942 alanine racemase; Reviewed; Region: alr; PRK00053 642492003943 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492003944 catalytic residue [active] 642492003945 Domain of unknown function (DUF1874); Region: DUF1874; cl07531 642492003946 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 642492003947 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 642492003948 binding surface 642492003949 TPR motif; other site 642492003950 TPR repeat; Region: TPR_11; pfam13414 642492003951 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 642492003952 binding surface 642492003953 TPR motif; other site 642492003954 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 642492003955 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 642492003956 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 642492003957 active site 642492003958 catalytic tetrad [active] 642492003959 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492003960 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 642492003961 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 642492003962 Nitrogen regulatory protein P-II; Region: P-II; cl00412 642492003963 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492003964 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 642492003965 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492003966 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492003967 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492003968 dimer interface [polypeptide binding]; other site 642492003969 putative CheW interface [polypeptide binding]; other site 642492003970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492003971 Helix-turn-helix domains; Region: HTH; cl00088 642492003972 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 642492003973 MatE; Region: MatE; cl10513 642492003974 MatE; Region: MatE; cl10513 642492003975 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492003976 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 642492003977 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 642492003978 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 642492003979 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 642492003980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 642492003981 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 642492003982 Helix-turn-helix domains; Region: HTH; cl00088 642492003983 Transglycosylase; Region: Transgly; cl07896 642492003984 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 642492003985 Bacterial SH3 domain; Region: SH3_3; cl02551 642492003986 Bacterial SH3 domain; Region: SH3_3; cl02551 642492003987 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 642492003988 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 642492003989 active site 642492003990 catalytic tetrad [active] 642492003991 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 642492003992 Isochorismatase family; Region: Isochorismatase; pfam00857 642492003993 catalytic triad [active] 642492003994 conserved cis-peptide bond; other site 642492003995 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 642492003996 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492003997 active site 642492003998 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 642492003999 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 642492004000 active site 642492004001 NAD synthetase; Reviewed; Region: nadE; PRK02628 642492004002 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 642492004003 multimer interface [polypeptide binding]; other site 642492004004 active site 642492004005 catalytic triad [active] 642492004006 protein interface 1 [polypeptide binding]; other site 642492004007 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 642492004008 homodimer interface [polypeptide binding]; other site 642492004009 NAD binding pocket [chemical binding]; other site 642492004010 ATP binding pocket [chemical binding]; other site 642492004011 Mg binding site [ion binding]; other site 642492004012 active-site loop [active] 642492004013 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 642492004014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004015 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 642492004016 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 642492004017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492004018 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 642492004019 active site 642492004020 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492004021 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492004022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492004023 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492004024 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 642492004025 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 642492004026 homodimer interface [polypeptide binding]; other site 642492004027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004028 catalytic residue [active] 642492004029 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 642492004030 spermidine synthase; Provisional; Region: PRK00811 642492004031 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 642492004032 S-adenosylmethionine binding site [chemical binding]; other site 642492004033 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 642492004034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004035 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 642492004036 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 642492004037 dimer interface [polypeptide binding]; other site 642492004038 active site 642492004039 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492004040 catalytic residues [active] 642492004041 substrate binding site [chemical binding]; other site 642492004042 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 642492004043 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492004044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492004045 Walker A/P-loop; other site 642492004046 ATP binding site [chemical binding]; other site 642492004047 Q-loop/lid; other site 642492004048 ABC transporter signature motif; other site 642492004049 Walker B; other site 642492004050 D-loop; other site 642492004051 H-loop/switch region; other site 642492004052 ABC transporter; Region: ABC_tran_2; pfam12848 642492004053 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492004054 Ion channel; Region: Ion_trans_2; cl11596 642492004055 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 642492004056 Cation efflux family; Region: Cation_efflux; cl00316 642492004057 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 642492004058 methionine aminopeptidase; Provisional; Region: PRK12318 642492004059 SEC-C motif; Region: SEC-C; pfam02810 642492004060 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 642492004061 active site 642492004062 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492004063 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492004064 Walker A/P-loop; other site 642492004065 ATP binding site [chemical binding]; other site 642492004066 Q-loop/lid; other site 642492004067 ABC transporter signature motif; other site 642492004068 Walker B; other site 642492004069 D-loop; other site 642492004070 H-loop/switch region; other site 642492004071 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 642492004072 active site 642492004073 catalytic triad [active] 642492004074 dimer interface [polypeptide binding]; other site 642492004075 Predicted amidohydrolase [General function prediction only]; Region: COG0388 642492004076 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 642492004077 active site 642492004078 catalytic triad [active] 642492004079 dimer interface [polypeptide binding]; other site 642492004080 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 642492004081 NodB motif; other site 642492004082 active site 642492004083 catalytic site [active] 642492004084 Zn binding site [ion binding]; other site 642492004085 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 642492004086 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 642492004087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492004088 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 642492004089 active site 642492004090 phosphorylation site [posttranslational modification] 642492004091 intermolecular recognition site; other site 642492004092 dimerization interface [polypeptide binding]; other site 642492004093 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 642492004094 DNA binding site [nucleotide binding] 642492004095 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492004096 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 642492004097 ATP binding site [chemical binding]; other site 642492004098 Mg2+ binding site [ion binding]; other site 642492004099 G-X-G motif; other site 642492004100 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492004101 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492004102 Walker A/P-loop; other site 642492004103 ATP binding site [chemical binding]; other site 642492004104 Q-loop/lid; other site 642492004105 ABC transporter signature motif; other site 642492004106 Walker B; other site 642492004107 D-loop; other site 642492004108 H-loop/switch region; other site 642492004109 FtsX-like permease family; Region: FtsX; cl15850 642492004110 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 642492004111 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 642492004112 active site 642492004113 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492004114 active site 642492004115 Cupin domain; Region: Cupin_2; cl09118 642492004116 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492004117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492004118 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 642492004119 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492004120 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492004121 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492004122 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 642492004123 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 642492004124 nudix motif; other site 642492004125 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 642492004126 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 642492004127 putative dimer interface [polypeptide binding]; other site 642492004128 [2Fe-2S] cluster binding site [ion binding]; other site 642492004129 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 642492004130 dimer interface [polypeptide binding]; other site 642492004131 [2Fe-2S] cluster binding site [ion binding]; other site 642492004132 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 642492004133 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 642492004134 SLBB domain; Region: SLBB; pfam10531 642492004135 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 642492004136 4Fe-4S binding domain; Region: Fer4; cl02805 642492004137 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 642492004138 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 642492004139 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 642492004140 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 642492004141 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 642492004142 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492004143 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 642492004144 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 642492004145 dimer interface [polypeptide binding]; other site 642492004146 [2Fe-2S] cluster binding site [ion binding]; other site 642492004147 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 642492004148 putative peptidoglycan binding site; other site 642492004149 G5 domain; Region: G5; pfam07501 642492004150 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492004151 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492004152 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492004153 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492004154 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 642492004155 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004156 AMIN domain; Region: AMIN; pfam11741 642492004157 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 642492004158 active site 642492004159 metal binding site [ion binding]; metal-binding site 642492004160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 642492004161 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 642492004162 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 642492004163 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 642492004164 Substrate-binding site [chemical binding]; other site 642492004165 Substrate specificity [chemical binding]; other site 642492004166 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 642492004167 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 642492004168 Walker A/P-loop; other site 642492004169 ATP binding site [chemical binding]; other site 642492004170 Q-loop/lid; other site 642492004171 ABC transporter signature motif; other site 642492004172 Walker B; other site 642492004173 D-loop; other site 642492004174 H-loop/switch region; other site 642492004175 NIL domain; Region: NIL; cl09633 642492004176 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 642492004177 dimer interface [polypeptide binding]; other site 642492004178 conserved gate region; other site 642492004179 putative PBP binding loops; other site 642492004180 ABC-ATPase subunit interface; other site 642492004181 NMT1-like family; Region: NMT1_2; cl15260 642492004182 Quinolinate synthetase A protein; Region: NadA; cl00420 642492004183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004184 FAD binding domain; Region: FAD_binding_2; pfam00890 642492004185 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 642492004186 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 642492004187 dimerization interface [polypeptide binding]; other site 642492004188 active site 642492004189 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 642492004190 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 642492004191 transmembrane helices; other site 642492004192 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 642492004193 SurA N-terminal domain; Region: SurA_N_3; cl07813 642492004194 PPIC-type PPIASE domain; Region: Rotamase; cl08278 642492004195 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 642492004196 dimer interface [polypeptide binding]; other site 642492004197 ADP-ribose binding site [chemical binding]; other site 642492004198 active site 642492004199 nudix motif; other site 642492004200 metal binding site [ion binding]; metal-binding site 642492004201 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 642492004202 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 bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 642492004203 putative active site [active] 642492004204 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492004205 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 642492004206 hypothetical protein; Provisional; Region: PRK00955 642492004207 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 642492004208 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492004209 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492004210 Zn2+ binding site [ion binding]; other site 642492004211 Mg2+ binding site [ion binding]; other site 642492004212 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 642492004213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004214 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 642492004215 TM-ABC transporter signature motif; other site 642492004216 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 642492004217 TM-ABC transporter signature motif; other site 642492004218 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 642492004219 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 642492004220 Walker A/P-loop; other site 642492004221 ATP binding site [chemical binding]; other site 642492004222 Q-loop/lid; other site 642492004223 ABC transporter signature motif; other site 642492004224 Walker B; other site 642492004225 D-loop; other site 642492004226 H-loop/switch region; other site 642492004227 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 642492004228 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492004229 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 642492004230 ligand binding site [chemical binding]; other site 642492004231 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492004232 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 642492004233 ligand binding site [chemical binding]; other site 642492004234 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004235 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 642492004236 active site 642492004237 metal binding site [ion binding]; metal-binding site 642492004238 hypothetical protein; Provisional; Region: PRK04435 642492004239 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492004240 homoserine dehydrogenase; Provisional; Region: PRK06349 642492004241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004242 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 642492004243 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 642492004244 Sulfatase; Region: Sulfatase; cl10460 642492004245 aspartate kinase; Reviewed; Region: PRK06635 642492004246 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 642492004247 putative nucleotide binding site [chemical binding]; other site 642492004248 putative catalytic residues [active] 642492004249 putative Mg ion binding site [ion binding]; other site 642492004250 putative aspartate binding site [chemical binding]; other site 642492004251 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 642492004252 putative allosteric regulatory site; other site 642492004253 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 642492004254 homoserine kinase; Provisional; Region: PRK01212 642492004255 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 642492004256 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 642492004257 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 642492004258 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 642492004259 ATP binding site [chemical binding]; other site 642492004260 Mg2+ binding site [ion binding]; other site 642492004261 G-X-G motif; other site 642492004262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492004263 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 642492004264 dimer interface [polypeptide binding]; other site 642492004265 phosphorylation site [posttranslational modification] 642492004266 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 642492004267 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 642492004268 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 642492004269 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 642492004270 RNA binding site [nucleotide binding]; other site 642492004271 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 642492004272 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492004273 putative transposase OrfB; Reviewed; Region: PHA02517 642492004274 HTH-like domain; Region: HTH_21; pfam13276 642492004275 Integrase core domain; Region: rve; cl01316 642492004276 Integrase core domain; Region: rve_3; cl15866 642492004277 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492004278 Helix-turn-helix domains; Region: HTH; cl00088 642492004279 Helix-turn-helix domains; Region: HTH; cl00088 642492004280 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 642492004281 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 642492004282 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 642492004283 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492004284 Coenzyme A binding pocket [chemical binding]; other site 642492004285 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004286 AAA domain; Region: AAA_32; pfam13654 642492004287 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 642492004288 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 642492004289 PAS domain; Region: PAS_9; pfam13426 642492004290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492004291 metal binding site [ion binding]; metal-binding site 642492004292 active site 642492004293 I-site; other site 642492004294 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 642492004295 transcription termination factor Rho; Provisional; Region: rho; PRK09376 642492004296 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 642492004297 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 642492004298 RNA binding site [nucleotide binding]; other site 642492004299 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 642492004300 multimer interface [polypeptide binding]; other site 642492004301 Walker A motif; other site 642492004302 ATP binding site [chemical binding]; other site 642492004303 Walker B motif; other site 642492004304 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 642492004305 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 642492004306 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 642492004307 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 642492004308 S-adenosylmethionine binding site [chemical binding]; other site 642492004309 peptide chain release factor 1; Validated; Region: prfA; PRK00591 642492004310 RF-1 domain; Region: RF-1; cl02875 642492004311 RF-1 domain; Region: RF-1; cl02875 642492004312 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 642492004313 putative metal binding site [ion binding]; other site 642492004314 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 642492004315 Cellulose binding domain; Region: CBM_3; cl03026 642492004316 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 642492004317 Domain of unknown function DUF21; Region: DUF21; pfam01595 642492004318 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 642492004319 Transporter associated domain; Region: CorC_HlyC; cl08393 642492004320 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492004321 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 642492004322 FeS/SAM binding site; other site 642492004323 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 642492004324 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 642492004325 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492004326 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 642492004327 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492004328 excinuclease ABC subunit B; Provisional; Region: PRK05298 642492004329 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 642492004330 ATP binding site [chemical binding]; other site 642492004331 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 642492004332 nucleotide binding region [chemical binding]; other site 642492004333 ATP-binding site [chemical binding]; other site 642492004334 Ultra-violet resistance protein B; Region: UvrB; pfam12344 642492004335 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 642492004336 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 642492004337 Fibronectin type III-like domain; Region: Fn3-like; cl15273 642492004338 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 642492004339 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492004340 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492004341 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492004342 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 642492004343 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 642492004344 ATP-binding site [chemical binding]; other site 642492004345 Sugar specificity; other site 642492004346 Pyrimidine base specificity; other site 642492004347 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004348 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 642492004349 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 642492004350 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 642492004351 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 642492004352 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 642492004353 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004354 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 642492004355 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 642492004356 GIY-YIG motif/motif A; other site 642492004357 active site 642492004358 catalytic site [active] 642492004359 putative DNA binding site [nucleotide binding]; other site 642492004360 metal binding site [ion binding]; metal-binding site 642492004361 UvrB/uvrC motif; Region: UVR; pfam02151 642492004362 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 642492004363 HPr kinase/phosphorylase; Provisional; Region: PRK05428 642492004364 DRTGG domain; Region: DRTGG; cl12147 642492004365 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 642492004366 Hpr binding site; other site 642492004367 active site 642492004368 homohexamer subunit interaction site [polypeptide binding]; other site 642492004369 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 642492004370 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 642492004371 catalytic site [active] 642492004372 metal binding site [ion binding]; metal-binding site 642492004373 YcxB-like protein; Region: YcxB; pfam14317 642492004374 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 642492004375 Metal-binding active site; metal-binding site 642492004376 Bacterial SH3 domain; Region: SH3_3; cl02551 642492004377 Bacterial SH3 domain; Region: SH3_3; cl02551 642492004378 NlpC/P60 family; Region: NLPC_P60; cl11438 642492004379 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492004380 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492004381 dimer interface [polypeptide binding]; other site 642492004382 putative CheW interface [polypeptide binding]; other site 642492004383 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 642492004384 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492004385 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 642492004386 dimerization interface [polypeptide binding]; other site 642492004387 putative DNA binding site [nucleotide binding]; other site 642492004388 putative Zn2+ binding site [ion binding]; other site 642492004389 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492004390 MatE; Region: MatE; cl10513 642492004391 MatE; Region: MatE; cl10513 642492004392 Low molecular weight phosphatase family; Region: LMWPc; cd00115 642492004393 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 642492004394 active site 642492004395 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 642492004396 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 642492004397 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 642492004398 Family description; Region: UvrD_C_2; cl15862 642492004399 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 642492004400 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 642492004401 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492004402 active site 642492004403 motif I; other site 642492004404 motif II; other site 642492004405 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492004406 putative peroxiredoxin; Provisional; Region: PRK13190 642492004407 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 642492004408 Glyco_18 domain; Region: Glyco_18; smart00636 642492004409 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 642492004410 active site 642492004411 heat shock protein 90; Provisional; Region: PRK05218 642492004412 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 642492004413 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 642492004414 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 642492004415 dimerization interface 3.5A [polypeptide binding]; other site 642492004416 active site 642492004417 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 642492004418 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 642492004419 oxyanion hole [active] 642492004420 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 642492004421 catalytic triad [active] 642492004422 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 642492004423 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 642492004424 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 642492004425 protein binding site [polypeptide binding]; other site 642492004426 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492004427 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 642492004428 active site 642492004429 phosphorylation site [posttranslational modification] 642492004430 intermolecular recognition site; other site 642492004431 dimerization interface [polypeptide binding]; other site 642492004432 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 642492004433 DNA binding site [nucleotide binding] 642492004434 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 642492004435 dimer interface [polypeptide binding]; other site 642492004436 phosphorylation site [posttranslational modification] 642492004437 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 642492004438 ATP binding site [chemical binding]; other site 642492004439 Mg2+ binding site [ion binding]; other site 642492004440 G-X-G motif; other site 642492004441 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 642492004442 PPIC-type PPIASE domain; Region: Rotamase; cl08278 642492004443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 642492004444 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 642492004445 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 642492004446 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 642492004447 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 642492004448 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492004449 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492004450 Zn2+ binding site [ion binding]; other site 642492004451 Mg2+ binding site [ion binding]; other site 642492004452 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492004453 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492004454 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 642492004455 GIY-YIG motif/motif A; other site 642492004456 putative active site [active] 642492004457 putative metal binding site [ion binding]; other site 642492004458 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492004459 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492004460 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 642492004461 Helix-turn-helix domains; Region: HTH; cl00088 642492004462 Rrf2 family protein; Region: rrf2_super; TIGR00738 642492004463 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 642492004464 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 642492004465 dimer interface [polypeptide binding]; other site 642492004466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004467 catalytic residue [active] 642492004468 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 642492004469 ligand binding site [chemical binding]; other site 642492004470 active site 642492004471 UGI interface [polypeptide binding]; other site 642492004472 catalytic site [active] 642492004473 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 642492004474 dimer interface [polypeptide binding]; other site 642492004475 active site 642492004476 Protein of unknown function, DUF606; Region: DUF606; cl01273 642492004477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004478 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 642492004479 NAD(P) binding site [chemical binding]; other site 642492004480 LDH/MDH dimer interface [polypeptide binding]; other site 642492004481 substrate binding site [chemical binding]; other site 642492004482 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 642492004483 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 642492004484 FeS/SAM binding site; other site 642492004485 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 642492004486 ATP cone domain; Region: ATP-cone; pfam03477 642492004487 Class III ribonucleotide reductase; Region: RNR_III; cd01675 642492004488 effector binding site; other site 642492004489 active site 642492004490 Zn binding site [ion binding]; other site 642492004491 glycine loop; other site 642492004492 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 642492004493 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 642492004494 active site 642492004495 substrate binding site [chemical binding]; other site 642492004496 catalytic site [active] 642492004497 Protein of unknown function (DUF3072); Region: DUF3072; pfam11272 642492004498 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492004499 active site 642492004500 catalytic triad [active] 642492004501 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 642492004502 active site 642492004503 catalytic residues [active] 642492004504 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492004505 active site 642492004506 catalytic triad [active] 642492004507 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492004508 active site 642492004509 catalytic triad [active] 642492004510 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492004511 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492004512 Walker A/P-loop; other site 642492004513 ATP binding site [chemical binding]; other site 642492004514 Q-loop/lid; other site 642492004515 ABC transporter signature motif; other site 642492004516 Walker B; other site 642492004517 D-loop; other site 642492004518 H-loop/switch region; other site 642492004519 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 642492004520 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 642492004521 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 642492004522 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492004523 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492004524 FtsX-like permease family; Region: FtsX; cl15850 642492004525 Stage II sporulation protein; Region: SpoIID; pfam08486 642492004526 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 642492004527 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 642492004528 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492004529 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492004530 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 642492004531 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 642492004532 GGGtGRT protein; Region: GGGtGRT; pfam14057 642492004533 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 642492004534 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 642492004535 inhibitor-cofactor binding pocket; inhibition site 642492004536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004537 catalytic residue [active] 642492004538 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 642492004539 substrate binding site; other site 642492004540 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 642492004541 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 642492004542 NAD binding site [chemical binding]; other site 642492004543 homotetramer interface [polypeptide binding]; other site 642492004544 homodimer interface [polypeptide binding]; other site 642492004545 substrate binding site [chemical binding]; other site 642492004546 active site 642492004547 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 642492004548 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492004549 PYR/PP interface [polypeptide binding]; other site 642492004550 dimer interface [polypeptide binding]; other site 642492004551 TPP binding site [chemical binding]; other site 642492004552 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 642492004553 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 642492004554 TPP-binding site [chemical binding]; other site 642492004555 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 642492004556 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 642492004557 Ligand binding site; other site 642492004558 Putative Catalytic site; other site 642492004559 DXD motif; other site 642492004560 GtrA-like protein; Region: GtrA; cl00971 642492004561 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 642492004562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004563 NAD(P) binding site [chemical binding]; other site 642492004564 active site 642492004565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004566 Methyltransferase domain; Region: Methyltransf_31; pfam13847 642492004567 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 642492004568 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 642492004569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004570 NAD(P) binding site [chemical binding]; other site 642492004571 active site 642492004572 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 642492004573 active site 642492004574 catalytic residues [active] 642492004575 metal binding site [ion binding]; metal-binding site 642492004576 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 642492004577 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 642492004578 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 642492004579 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 642492004580 Walker A motif; other site 642492004581 ATP binding site [chemical binding]; other site 642492004582 Walker B motif; other site 642492004583 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 642492004584 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492004585 Walker A motif; other site 642492004586 ATP binding site [chemical binding]; other site 642492004587 Walker B motif; other site 642492004588 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 642492004589 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 642492004590 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 642492004591 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 642492004592 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 642492004593 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 642492004594 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 642492004595 Cell division protein FtsA; Region: FtsA; cl11496 642492004596 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 642492004597 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 642492004598 active site 642492004599 motif I; other site 642492004600 motif II; other site 642492004601 shikimate kinase; Reviewed; Region: aroK; PRK00131 642492004602 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 642492004603 ADP binding site [chemical binding]; other site 642492004604 magnesium binding site [ion binding]; other site 642492004605 putative shikimate binding site; other site 642492004606 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 642492004607 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 642492004608 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 642492004609 active site 642492004610 elongation factor P; Validated; Region: PRK00529 642492004611 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 642492004612 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 642492004613 RNA binding site [nucleotide binding]; other site 642492004614 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 642492004615 RNA binding site [nucleotide binding]; other site 642492004616 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 642492004617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492004618 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 642492004619 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 642492004620 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 642492004621 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 642492004622 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 642492004623 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 642492004624 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 642492004625 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 642492004626 Asp23 family; Region: Asp23; cl00574 642492004627 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 642492004628 putative RNA binding site [nucleotide binding]; other site 642492004629 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 642492004630 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 642492004631 generic binding surface II; other site 642492004632 generic binding surface I; other site 642492004633 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 642492004634 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 642492004635 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 642492004636 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 642492004637 substrate binding pocket [chemical binding]; other site 642492004638 chain length determination region; other site 642492004639 substrate-Mg2+ binding site; other site 642492004640 catalytic residues [active] 642492004641 aspartate-rich region 1; other site 642492004642 active site lid residues [active] 642492004643 aspartate-rich region 2; other site 642492004644 Divergent PAP2 family; Region: DUF212; cl00855 642492004645 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 642492004646 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 642492004647 TPP-binding site; other site 642492004648 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 642492004649 PYR/PP interface [polypeptide binding]; other site 642492004650 dimer interface [polypeptide binding]; other site 642492004651 TPP binding site [chemical binding]; other site 642492004652 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492004653 phage shock protein A; Region: phageshock_pspA; TIGR02977 642492004654 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 642492004655 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 642492004656 RNA binding surface [nucleotide binding]; other site 642492004657 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492004658 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 642492004659 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 642492004660 arginine repressor; Provisional; Region: argR; PRK00441 642492004661 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 642492004662 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 642492004663 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 642492004664 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 642492004665 Walker A/P-loop; other site 642492004666 ATP binding site [chemical binding]; other site 642492004667 Q-loop/lid; other site 642492004668 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 642492004669 ABC transporter signature motif; other site 642492004670 Walker B; other site 642492004671 D-loop; other site 642492004672 H-loop/switch region; other site 642492004673 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 642492004674 CcmE; Region: CcmE; cl00994 642492004675 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 642492004676 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 642492004677 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 642492004678 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 642492004679 active site 642492004680 phosphorylation site [posttranslational modification] 642492004681 intermolecular recognition site; other site 642492004682 dimerization interface [polypeptide binding]; other site 642492004683 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 642492004684 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492004685 Flavin Reductases; Region: FlaRed; cl00801 642492004686 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492004687 Cellulose binding domain; Region: CBM_2; cl02709 642492004688 Cellulose binding domain; Region: CBM_2; cl02709 642492004689 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 642492004690 dimer interface [polypeptide binding]; other site 642492004691 active site 642492004692 citrylCoA binding site [chemical binding]; other site 642492004693 Citrate synthase; Region: Citrate_synt; pfam00285 642492004694 oxalacetate/citrate binding site [chemical binding]; other site 642492004695 coenzyme A binding site [chemical binding]; other site 642492004696 catalytic triad [active] 642492004697 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 642492004698 Domain of unknown function (DUF814); Region: DUF814; pfam05670 642492004699 hypothetical protein; Provisional; Region: PRK11820 642492004700 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 642492004701 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 642492004702 Domain of unknown function (DUF370); Region: DUF370; cl00898 642492004703 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 642492004704 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 642492004705 catalytic site [active] 642492004706 G-X2-G-X-G-K; other site 642492004707 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 642492004708 primosome assembly protein PriA; Validated; Region: PRK05580 642492004709 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 642492004710 ATP binding site [chemical binding]; other site 642492004711 putative Mg++ binding site [ion binding]; other site 642492004712 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 642492004713 nucleotide binding region [chemical binding]; other site 642492004714 ATP-binding site [chemical binding]; other site 642492004715 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 642492004716 active site 642492004717 catalytic residues [active] 642492004718 metal binding site [ion binding]; metal-binding site 642492004719 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 642492004720 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 642492004721 putative active site [active] 642492004722 substrate binding site [chemical binding]; other site 642492004723 putative cosubstrate binding site; other site 642492004724 catalytic site [active] 642492004725 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 642492004726 substrate binding site [chemical binding]; other site 642492004727 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 642492004728 16S rRNA methyltransferase B; Provisional; Region: PRK14902 642492004729 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 642492004730 putative RNA binding site [nucleotide binding]; other site 642492004731 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 642492004732 S-adenosylmethionine binding site [chemical binding]; other site 642492004733 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 642492004734 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 642492004735 FeS/SAM binding site; other site 642492004736 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 642492004737 Protein phosphatase 2C; Region: PP2C; pfam00481 642492004738 active site 642492004739 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 642492004740 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 642492004741 active site 642492004742 ATP binding site [chemical binding]; other site 642492004743 substrate binding site [chemical binding]; other site 642492004744 activation loop (A-loop); other site 642492004745 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 642492004746 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 642492004747 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 642492004748 GTPase RsgA; Reviewed; Region: PRK00098 642492004749 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 642492004750 RNA binding site [nucleotide binding]; other site 642492004751 homodimer interface [polypeptide binding]; other site 642492004752 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 642492004753 GTPase/Zn-binding domain interface [polypeptide binding]; other site 642492004754 GTP/Mg2+ binding site [chemical binding]; other site 642492004755 G4 box; other site 642492004756 G5 box; other site 642492004757 G1 box; other site 642492004758 Switch I region; other site 642492004759 G2 box; other site 642492004760 G3 box; other site 642492004761 Switch II region; other site 642492004762 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 642492004763 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 642492004764 substrate binding site [chemical binding]; other site 642492004765 hexamer interface [polypeptide binding]; other site 642492004766 metal binding site [ion binding]; metal-binding site 642492004767 Thiamine pyrophosphokinase; Region: TPK; cd07995 642492004768 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 642492004769 active site 642492004770 dimerization interface [polypeptide binding]; other site 642492004771 thiamine binding site [chemical binding]; other site 642492004772 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 642492004773 Asp23 family; Region: Asp23; cl00574 642492004774 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 642492004775 DAK2 domain; Region: Dak2; cl03685 642492004776 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492004777 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 642492004778 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 642492004779 ssDNA binding site; other site 642492004780 generic binding surface II; other site 642492004781 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 642492004782 ATP binding site [chemical binding]; other site 642492004783 putative Mg++ binding site [ion binding]; other site 642492004784 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 642492004785 nucleotide binding region [chemical binding]; other site 642492004786 ATP-binding site [chemical binding]; other site 642492004787 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 642492004788 S-adenosylmethionine binding site [chemical binding]; other site 642492004789 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 642492004790 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 642492004791 active site 642492004792 (T/H)XGH motif; other site 642492004793 Plant ATP synthase F0; Region: YMF19; cl07975 642492004794 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492004795 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 642492004796 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492004797 Peptidase M16C associated; Region: M16C_assoc; pfam08367 642492004798 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 642492004799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004800 NAD(P) binding site [chemical binding]; other site 642492004801 active site 642492004802 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 642492004803 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 642492004804 RNA binding surface [nucleotide binding]; other site 642492004805 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 642492004806 active site 642492004807 Recombination protein U; Region: RecU; cl01314 642492004808 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 642492004809 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 642492004810 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492004811 Walker A/P-loop; other site 642492004812 ATP binding site [chemical binding]; other site 642492004813 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 642492004814 Uncharacterized conserved protein [Function unknown]; Region: COG2718 642492004815 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 642492004816 metal ion-dependent adhesion site (MIDAS); other site 642492004817 SpoVR like protein; Region: SpoVR; pfam04293 642492004818 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 642492004819 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 642492004820 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492004821 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492004822 carbohydrate binding site [chemical binding]; other site 642492004823 pullulanase, type I; Region: pulA_typeI; TIGR02104 642492004824 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 642492004825 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 642492004826 Ca binding site [ion binding]; other site 642492004827 active site 642492004828 catalytic site [active] 642492004829 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 642492004830 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492004831 carbohydrate binding site [chemical binding]; other site 642492004832 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492004833 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 642492004834 active site 642492004835 catalytic site [active] 642492004836 S-layer homology domain; Region: SLH; pfam00395 642492004837 S-layer homology domain; Region: SLH; pfam00395 642492004838 S-layer homology domain; Region: SLH; pfam00395 642492004839 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492004840 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 642492004841 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 642492004842 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 642492004843 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 642492004844 active site 642492004845 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 642492004846 oligoendopeptidase F; Region: pepF; TIGR00181 642492004847 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 642492004848 active site 642492004849 Zn binding site [ion binding]; other site 642492004850 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_3; cd08770 642492004851 SxDxEG motif; other site 642492004852 putative active site [active] 642492004853 putative metal binding site [ion binding]; other site 642492004854 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 642492004855 catalytic core [active] 642492004856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004857 thymidine kinase; Provisional; Region: PRK04296 642492004858 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 642492004859 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 642492004860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004861 dihydroorotase; Validated; Region: pyrC; PRK09357 642492004862 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 642492004863 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 642492004864 active site 642492004865 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 642492004866 active site 642492004867 dimer interface [polypeptide binding]; other site 642492004868 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 642492004869 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 642492004870 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 642492004871 catalytic site [active] 642492004872 subunit interface [polypeptide binding]; other site 642492004873 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 642492004874 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492004875 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492004876 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 642492004877 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492004878 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492004879 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 642492004880 IMP binding site; other site 642492004881 dimer interface [polypeptide binding]; other site 642492004882 interdomain contacts; other site 642492004883 partial ornithine binding site; other site 642492004884 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 642492004885 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 642492004886 FAD binding pocket [chemical binding]; other site 642492004887 FAD binding motif [chemical binding]; other site 642492004888 phosphate binding motif [ion binding]; other site 642492004889 beta-alpha-beta structure motif; other site 642492004890 NAD binding pocket [chemical binding]; other site 642492004891 Iron coordination center [ion binding]; other site 642492004892 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 642492004893 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 642492004894 heterodimer interface [polypeptide binding]; other site 642492004895 active site 642492004896 FMN binding site [chemical binding]; other site 642492004897 homodimer interface [polypeptide binding]; other site 642492004898 substrate binding site [chemical binding]; other site 642492004899 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 642492004900 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492004901 active site 642492004902 short chain dehydrogenase; Provisional; Region: PRK06701 642492004903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004904 NAD(P) binding site [chemical binding]; other site 642492004905 active site 642492004906 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 642492004907 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492004908 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 642492004909 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 642492004910 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 642492004911 Int/Topo IB signature motif; other site 642492004912 Domain of unknown function (DUF955); Region: DUF955; cl01076 642492004913 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 642492004914 non-specific DNA binding site [nucleotide binding]; other site 642492004915 salt bridge; other site 642492004916 sequence-specific DNA binding site [nucleotide binding]; other site 642492004917 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492004918 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492004919 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 642492004920 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 642492004921 Helix-turn-helix domains; Region: HTH; cl00088 642492004922 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 642492004923 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 642492004924 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; cl02940 642492004925 beta-clamp/clamp loader binding surface; other site 642492004926 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492004927 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 642492004928 cofactor binding site; other site 642492004929 DNA binding site [nucleotide binding] 642492004930 substrate interaction site [chemical binding]; other site 642492004931 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 642492004932 DNA binding site [nucleotide binding] 642492004933 Int/Topo IB signature motif; other site 642492004934 active site 642492004935 catalytic residues [active] 642492004936 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 642492004937 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 642492004938 DNA binding site [nucleotide binding] 642492004939 Int/Topo IB signature motif; other site 642492004940 active site 642492004941 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 642492004942 AAA domain; Region: AAA_33; pfam13671 642492004943 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 642492004944 Phage Terminase; Region: Terminase_1; pfam03354 642492004945 Phage-related protein [Function unknown]; Region: COG4695; cl01923 642492004946 Phage portal protein; Region: Phage_portal; pfam04860 642492004947 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 642492004948 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 642492004949 Phage capsid family; Region: Phage_capsid; pfam05065 642492004950 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 642492004951 Phage-related minor tail protein [Function unknown]; Region: COG5280 642492004952 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 642492004953 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 642492004954 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492004955 murein transglycosylase C; Provisional; Region: mltC; PRK11671 642492004956 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 642492004957 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492004958 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 642492004959 active site 642492004960 phosphorylation site [posttranslational modification] 642492004961 intermolecular recognition site; other site 642492004962 dimerization interface [polypeptide binding]; other site 642492004963 LytTr DNA-binding domain; Region: LytTR; cl04498 642492004964 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492004965 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 642492004966 Accessory gene regulator B; Region: AgrB; cl01873 642492004967 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 642492004968 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 642492004969 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 642492004970 putative L-serine binding site [chemical binding]; other site 642492004971 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 642492004972 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 642492004973 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 642492004974 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492004975 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 642492004976 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492004977 Helix-turn-helix domains; Region: HTH; cl00088 642492004978 Helix-turn-helix domains; Region: HTH; cl00088 642492004979 putative transposase OrfB; Reviewed; Region: PHA02517 642492004980 HTH-like domain; Region: HTH_21; pfam13276 642492004981 Integrase core domain; Region: rve; cl01316 642492004982 Integrase core domain; Region: rve_3; cl15866 642492004983 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492004984 MatE; Region: MatE; cl10513 642492004985 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492004986 flavoprotein, HI0933 family; Region: TIGR00275 642492004987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004988 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 642492004989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004990 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492004991 active site 642492004992 AzlC protein; Region: AzlC; cl00570 642492004993 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 642492004994 Sugar fermentation stimulation protein; Region: SfsA; cl00647 642492004995 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 642492004996 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 642492004997 motif II; other site 642492004998 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 642492004999 PPIC-type PPIASE domain; Region: Rotamase; cl08278 642492005000 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 642492005001 active site 642492005002 metal binding site [ion binding]; metal-binding site 642492005003 homotetramer interface [polypeptide binding]; other site 642492005004 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492005005 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 642492005006 Walker A/P-loop; other site 642492005007 ATP binding site [chemical binding]; other site 642492005008 Q-loop/lid; other site 642492005009 ABC transporter signature motif; other site 642492005010 Walker B; other site 642492005011 D-loop; other site 642492005012 H-loop/switch region; other site 642492005013 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492005014 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492005015 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 642492005016 NMT1-like family; Region: NMT1_2; cl15260 642492005017 Flagellin N-methylase; Region: FliB; cl00497 642492005018 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 642492005019 putative deacylase active site [active] 642492005020 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 642492005021 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 642492005022 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 642492005023 active site 642492005024 nucleophile elbow; other site 642492005025 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 642492005026 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 642492005027 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492005028 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492005029 ABC transporter; Region: ABC_tran_2; pfam12848 642492005030 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492005031 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492005032 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492005033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492005034 Walker A/P-loop; other site 642492005035 ATP binding site [chemical binding]; other site 642492005036 Q-loop/lid; other site 642492005037 ABC transporter signature motif; other site 642492005038 Walker B; other site 642492005039 D-loop; other site 642492005040 H-loop/switch region; other site 642492005041 ABC transporter; Region: ABC_tran_2; pfam12848 642492005042 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492005043 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 642492005044 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 642492005045 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 642492005046 RNA binding site [nucleotide binding]; other site 642492005047 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 642492005048 RNA binding site [nucleotide binding]; other site 642492005049 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 642492005050 RNA binding site [nucleotide binding]; other site 642492005051 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 642492005052 RNA binding site [nucleotide binding]; other site 642492005053 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 642492005054 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 642492005055 HIGH motif; other site 642492005056 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 642492005057 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 642492005058 active site 642492005059 KMSKS motif; other site 642492005060 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 642492005061 tRNA binding surface [nucleotide binding]; other site 642492005062 anticodon binding site; other site 642492005063 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 642492005064 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492005065 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492005066 DNA binding site [nucleotide binding] 642492005067 domain linker motif; other site 642492005068 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 642492005069 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 642492005070 dimer interface [polypeptide binding]; other site 642492005071 conserved gate region; other site 642492005072 putative PBP binding loops; other site 642492005073 ABC-ATPase subunit interface; other site 642492005074 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 642492005075 dimer interface [polypeptide binding]; other site 642492005076 conserved gate region; other site 642492005077 putative PBP binding loops; other site 642492005078 ABC-ATPase subunit interface; other site 642492005079 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 642492005080 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492005081 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 642492005082 homodimer interface [polypeptide binding]; other site 642492005083 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 642492005084 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492005085 active site 642492005086 homodimer interface [polypeptide binding]; other site 642492005087 catalytic site [active] 642492005088 DNA topoisomerase III; Provisional; Region: PRK07726 642492005089 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 642492005090 active site 642492005091 putative interdomain interaction site [polypeptide binding]; other site 642492005092 putative metal-binding site [ion binding]; other site 642492005093 putative nucleotide binding site [chemical binding]; other site 642492005094 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 642492005095 domain I; other site 642492005096 DNA binding groove [nucleotide binding] 642492005097 phosphate binding site [ion binding]; other site 642492005098 domain II; other site 642492005099 domain III; other site 642492005100 nucleotide binding site [chemical binding]; other site 642492005101 catalytic site [active] 642492005102 domain IV; other site 642492005103 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 642492005104 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492005105 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 642492005106 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492005107 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 642492005108 Bacterial SH3 domain; Region: SH3_3; cl02551 642492005109 NlpC/P60 family; Region: NLPC_P60; cl11438 642492005110 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 642492005111 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 642492005112 Walker A/P-loop; other site 642492005113 ATP binding site [chemical binding]; other site 642492005114 Q-loop/lid; other site 642492005115 ABC transporter signature motif; other site 642492005116 Walker B; other site 642492005117 D-loop; other site 642492005118 H-loop/switch region; other site 642492005119 Plant ATP synthase F0; Region: YMF19; cl07975 642492005120 Smr domain; Region: Smr; cl02619 642492005121 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492005122 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 642492005123 active site 642492005124 phosphorylation site [posttranslational modification] 642492005125 intermolecular recognition site; other site 642492005126 dimerization interface [polypeptide binding]; other site 642492005127 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 642492005128 DNA binding site [nucleotide binding] 642492005129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492005130 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 642492005131 dimerization interface [polypeptide binding]; other site 642492005132 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 642492005133 dimer interface [polypeptide binding]; other site 642492005134 phosphorylation site [posttranslational modification] 642492005135 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 642492005136 ATP binding site [chemical binding]; other site 642492005137 Mg2+ binding site [ion binding]; other site 642492005138 G-X-G motif; other site 642492005139 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 642492005140 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 642492005141 generic binding surface I; other site 642492005142 generic binding surface II; other site 642492005143 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492005144 Zn2+ binding site [ion binding]; other site 642492005145 Mg2+ binding site [ion binding]; other site 642492005146 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 642492005147 TRAM domain; Region: TRAM; cl01282 642492005148 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 642492005149 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 642492005150 S-adenosylmethionine binding site [chemical binding]; other site 642492005151 Helix-turn-helix domains; Region: HTH; cl00088 642492005152 Helix-turn-helix domains; Region: HTH; cl00088 642492005153 HTH-like domain; Region: HTH_21; pfam13276 642492005154 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492005155 Helix-turn-helix domains; Region: HTH; cl00088 642492005156 putative transposase OrfB; Reviewed; Region: PHA02517 642492005157 HTH-like domain; Region: HTH_21; pfam13276 642492005158 Integrase core domain; Region: rve; cl01316 642492005159 Integrase core domain; Region: rve_3; cl15866 642492005160 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cd00037 642492005161 ligand binding surface [chemical binding]; other site 642492005162 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 642492005163 active site 642492005164 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 642492005165 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 642492005166 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 642492005167 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 642492005168 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492005169 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 642492005170 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 642492005171 Protein of unknown function (DUF419); Region: DUF419; cl15265 642492005172 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 642492005173 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 642492005174 homotrimer interaction site [polypeptide binding]; other site 642492005175 putative active site [active] 642492005176 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 642492005177 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 642492005178 putative active site [active] 642492005179 metal binding site [ion binding]; metal-binding site 642492005180 SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from...; Region: XynB_like; cd01833 642492005181 active site 642492005182 catalytic triad [active] 642492005183 oxyanion hole [active] 642492005184 Cellulose binding domain; Region: CBM_2; cl02709 642492005185 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492005186 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 642492005187 sugar binding site [chemical binding]; other site 642492005188 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005189 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005190 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005191 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005192 Cellulose binding domain; Region: CBM_3; cl03026 642492005193 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 642492005194 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 642492005195 G1 box; other site 642492005196 putative GEF interaction site [polypeptide binding]; other site 642492005197 GTP/Mg2+ binding site [chemical binding]; other site 642492005198 Switch I region; other site 642492005199 G2 box; other site 642492005200 G3 box; other site 642492005201 Switch II region; other site 642492005202 G4 box; other site 642492005203 G5 box; other site 642492005204 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 642492005205 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 642492005206 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 642492005207 YacP-like NYN domain; Region: NYN_YacP; cl01491 642492005208 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492005209 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 642492005210 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492005211 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 642492005212 uracil transporter; Provisional; Region: PRK10720 642492005213 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 642492005214 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492005215 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 642492005216 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 642492005217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492005218 Helix-turn-helix domains; Region: HTH; cl00088 642492005219 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 642492005220 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 642492005221 active site 642492005222 FMN binding site [chemical binding]; other site 642492005223 substrate binding site [chemical binding]; other site 642492005224 putative catalytic residue [active] 642492005225 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492005226 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 642492005227 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 642492005228 Protein of unknown function (DUF436); Region: DUF436; cl01860 642492005229 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 642492005230 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 642492005231 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 642492005232 FMN binding site [chemical binding]; other site 642492005233 active site 642492005234 catalytic residues [active] 642492005235 substrate binding site [chemical binding]; other site 642492005236 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 642492005237 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 642492005238 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 642492005239 non-specific DNA binding site [nucleotide binding]; other site 642492005240 salt bridge; other site 642492005241 sequence-specific DNA binding site [nucleotide binding]; other site 642492005242 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 642492005243 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 642492005244 non-heme iron binding site [ion binding]; other site 642492005245 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 642492005246 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 642492005247 salt bridge; other site 642492005248 non-specific DNA binding site [nucleotide binding]; other site 642492005249 sequence-specific DNA binding site [nucleotide binding]; other site 642492005250 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 642492005251 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 642492005252 FeS/SAM binding site; other site 642492005253 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 642492005254 ZIP Zinc transporter; Region: Zip; pfam02535 642492005255 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 642492005256 Ferritin-like domain; Region: Ferritin; pfam00210 642492005257 ferroxidase diiron center [ion binding]; other site 642492005258 Phospholipid methyltransferase; Region: PEMT; cl00763 642492005259 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 642492005260 Spore germination protein; Region: Spore_permease; cl15802 642492005261 Helix-turn-helix domains; Region: HTH; cl00088 642492005262 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 642492005263 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 642492005264 NAD(P) binding site [chemical binding]; other site 642492005265 catalytic residues [active] 642492005266 FIST N domain; Region: FIST; cl10701 642492005267 FIST C domain; Region: FIST_C; pfam10442 642492005268 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 642492005269 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 642492005270 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 642492005271 Helix-turn-helix domains; Region: HTH; cl00088 642492005272 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 642492005273 putative dimerization interface [polypeptide binding]; other site 642492005274 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 642492005275 hypothetical protein; Provisional; Region: PRK09273 642492005276 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 642492005277 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 642492005278 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 642492005279 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 642492005280 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 642492005281 G1 box; other site 642492005282 putative GEF interaction site [polypeptide binding]; other site 642492005283 GTP/Mg2+ binding site [chemical binding]; other site 642492005284 Switch I region; other site 642492005285 G2 box; other site 642492005286 G3 box; other site 642492005287 Switch II region; other site 642492005288 G4 box; other site 642492005289 G5 box; other site 642492005290 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 642492005291 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 642492005292 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 642492005293 active site 642492005294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005296 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 642492005297 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 642492005298 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 642492005299 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 642492005300 ATP cone domain; Region: ATP-cone; pfam03477 642492005301 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 642492005302 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 642492005303 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 642492005304 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 642492005305 trimer interface [polypeptide binding]; other site 642492005306 active site 642492005307 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 642492005308 ATP cone domain; Region: ATP-cone; pfam03477 642492005309 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 642492005310 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 642492005311 metal ion-dependent adhesion site (MIDAS); other site 642492005312 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 642492005313 Protein of unknown function, DUF488; Region: DUF488; cl01246 642492005314 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 642492005315 octamerization interface [polypeptide binding]; other site 642492005316 diferric-oxygen binding site [ion binding]; other site 642492005317 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 642492005318 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492005319 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492005320 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 642492005321 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 642492005322 dimer interface [polypeptide binding]; other site 642492005323 PYR/PP interface [polypeptide binding]; other site 642492005324 TPP binding site [chemical binding]; other site 642492005325 substrate binding site [chemical binding]; other site 642492005326 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 642492005327 Domain of unknown function; Region: EKR; cl11037 642492005328 4Fe-4S binding domain; Region: Fer4; cl02805 642492005329 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 642492005330 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 642492005331 TPP-binding site [chemical binding]; other site 642492005332 dimer interface [polypeptide binding]; other site 642492005333 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 642492005334 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492005335 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 642492005336 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492005337 Peptidase M16C associated; Region: M16C_assoc; pfam08367 642492005338 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 642492005339 aspartate aminotransferase; Provisional; Region: PRK07681 642492005340 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 642492005341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492005342 homodimer interface [polypeptide binding]; other site 642492005343 catalytic residue [active] 642492005344 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 642492005345 Walker A motif; other site 642492005346 ATP binding site [chemical binding]; other site 642492005347 Walker B motif; other site 642492005348 arginine finger; other site 642492005349 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 642492005350 Sulfate transporter family; Region: Sulfate_transp; cl15842 642492005351 Sulfate transporter family; Region: Sulfate_transp; cl15842 642492005352 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 642492005353 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 642492005354 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 642492005355 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 642492005356 glutaminase active site [active] 642492005357 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 642492005358 dimer interface [polypeptide binding]; other site 642492005359 active site 642492005360 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 642492005361 dimer interface [polypeptide binding]; other site 642492005362 active site 642492005363 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 642492005364 putative metal binding site [ion binding]; other site 642492005365 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 642492005366 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 642492005367 CoenzymeA binding site [chemical binding]; other site 642492005368 subunit interaction site [polypeptide binding]; other site 642492005369 PHB binding site; other site 642492005370 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 642492005371 4Fe-4S binding domain; Region: Fer4; cl02805 642492005372 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492005373 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 642492005374 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 642492005375 Ligand binding site; other site 642492005376 Putative Catalytic site; other site 642492005377 DXD motif; other site 642492005378 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 642492005379 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 642492005380 NodB motif; other site 642492005381 active site 642492005382 catalytic site [active] 642492005383 Cd binding site [ion binding]; other site 642492005384 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 642492005385 Clp amino terminal domain; Region: Clp_N; pfam02861 642492005386 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 642492005387 Walker A motif; other site 642492005388 ATP binding site [chemical binding]; other site 642492005389 Walker B motif; other site 642492005390 arginine finger; other site 642492005391 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 642492005392 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 642492005393 Walker A motif; other site 642492005394 ATP binding site [chemical binding]; other site 642492005395 Walker B motif; other site 642492005396 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 642492005397 Protein of unknown function (DUF523); Region: DUF523; cl00733 642492005398 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492005399 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492005400 Histidine kinase; Region: His_kinase; pfam06580 642492005401 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 642492005402 ATP binding site [chemical binding]; other site 642492005403 Mg2+ binding site [ion binding]; other site 642492005404 G-X-G motif; other site 642492005405 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 642492005406 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 642492005407 active site 642492005408 phosphorylation site [posttranslational modification] 642492005409 intermolecular recognition site; other site 642492005410 dimerization interface [polypeptide binding]; other site 642492005411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492005412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492005413 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492005414 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 642492005415 dimer interface [polypeptide binding]; other site 642492005416 conserved gate region; other site 642492005417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492005418 ABC-ATPase subunit interface; other site 642492005419 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492005420 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 642492005421 dimer interface [polypeptide binding]; other site 642492005422 conserved gate region; other site 642492005423 putative PBP binding loops; other site 642492005424 ABC-ATPase subunit interface; other site 642492005425 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492005426 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 642492005427 YabP family; Region: YabP; cl06766 642492005428 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 642492005429 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 642492005430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492005431 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 642492005432 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 642492005433 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492005434 Zn2+ binding site [ion binding]; other site 642492005435 Mg2+ binding site [ion binding]; other site 642492005436 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 642492005437 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 642492005438 active site 642492005439 catalytic motif [active] 642492005440 Zn binding site [ion binding]; other site 642492005441 GTPase Era; Reviewed; Region: era; PRK00089 642492005442 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 642492005443 G1 box; other site 642492005444 GTP/Mg2+ binding site [chemical binding]; other site 642492005445 Switch I region; other site 642492005446 G2 box; other site 642492005447 Switch II region; other site 642492005448 G3 box; other site 642492005449 G4 box; other site 642492005450 G5 box; other site 642492005451 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 642492005452 YqzL-like protein; Region: YqzL; pfam14006 642492005453 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 642492005454 Recombination protein O N terminal; Region: RecO_N; cl15812 642492005455 Recombination protein O C terminal; Region: RecO_C; pfam02565 642492005456 DNA polymerase I; Provisional; Region: PRK05755 642492005457 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 642492005458 active site 642492005459 metal binding site 1 [ion binding]; metal-binding site 642492005460 putative 5' ssDNA interaction site; other site 642492005461 metal binding site 3; metal-binding site 642492005462 metal binding site 2 [ion binding]; metal-binding site 642492005463 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 642492005464 putative DNA binding site [nucleotide binding]; other site 642492005465 putative metal binding site [ion binding]; other site 642492005466 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 642492005467 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 642492005468 active site 642492005469 DNA binding site [nucleotide binding] 642492005470 catalytic site [active] 642492005471 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 642492005472 CoA-binding site [chemical binding]; other site 642492005473 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 642492005474 peptide binding site [polypeptide binding]; other site 642492005475 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 642492005476 dimer interface [polypeptide binding]; other site 642492005477 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 642492005478 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 642492005479 nucleotide binding site/active site [active] 642492005480 HIT family signature motif; other site 642492005481 catalytic residue [active] 642492005482 Cell division protein FtsA; Region: FtsA; cl11496 642492005483 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 642492005484 Cell division protein FtsA; Region: FtsA; cl11496 642492005485 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 642492005486 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 642492005487 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 642492005488 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 642492005489 metal binding site [ion binding]; metal-binding site 642492005490 dimer interface [polypeptide binding]; other site 642492005491 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 642492005492 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492005493 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 642492005494 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 642492005495 active site 642492005496 HIGH motif; other site 642492005497 dimer interface [polypeptide binding]; other site 642492005498 KMSKS motif; other site 642492005499 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 642492005500 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492005501 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 642492005502 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 642492005503 active site 642492005504 catalytic site [active] 642492005505 Domain of unknown function (DUF378); Region: DUF378; cl00943 642492005506 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 642492005507 active site 642492005508 Zn binding site [ion binding]; other site 642492005509 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 642492005510 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492005511 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492005512 active site 642492005513 metal binding site [ion binding]; metal-binding site 642492005514 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 642492005515 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 642492005516 S-adenosylmethionine binding site [chemical binding]; other site 642492005517 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 642492005518 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 642492005519 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 642492005520 RNA binding surface [nucleotide binding]; other site 642492005521 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 642492005522 active site 642492005523 uracil binding [chemical binding]; other site 642492005524 ornithine carbamoyltransferase; Validated; Region: PRK02102 642492005525 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 642492005526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005527 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 642492005528 homodimer interface [polypeptide binding]; other site 642492005529 substrate-cofactor binding pocket; other site 642492005530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492005531 catalytic residue [active] 642492005532 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 642492005533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005534 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 642492005535 L-serine binding site [chemical binding]; other site 642492005536 ACT domain interface; other site 642492005537 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 642492005538 ATP binding site [chemical binding]; other site 642492005539 Mg2+ binding site [ion binding]; other site 642492005540 G-X-G motif; other site 642492005541 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 642492005542 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 642492005543 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 642492005544 SLBB domain; Region: SLBB; pfam10531 642492005545 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 642492005546 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 642492005547 FMN-binding domain; Region: FMN_bind; cl01081 642492005548 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 642492005549 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 642492005550 ferredoxin; Validated; Region: PRK07118 642492005551 4Fe-4S binding domain; Region: Fer4; cl02805 642492005552 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 642492005553 Maf-like protein; Region: Maf; pfam02545 642492005554 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 642492005555 active site 642492005556 dimer interface [polypeptide binding]; other site 642492005557 hypothetical protein; Reviewed; Region: PRK00024 642492005558 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 642492005559 MPN+ (JAMM) motif; other site 642492005560 Zinc-binding site [ion binding]; other site 642492005561 rod shape-determining protein MreB; Provisional; Region: PRK13927 642492005562 Cell division protein FtsA; Region: FtsA; cl11496 642492005563 TSC-22/dip/bun family; Region: TSC22; cl01853 642492005564 rod shape-determining protein MreC; Region: MreC; pfam04085 642492005565 rod shape-determining protein MreD; Region: MreD; cl01087 642492005566 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 642492005567 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492005568 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492005569 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492005570 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492005571 septum formation inhibitor; Reviewed; Region: minC; PRK00513 642492005572 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 642492005573 septum site-determining protein MinD; Region: minD_bact; TIGR01968 642492005574 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 642492005575 Switch I; other site 642492005576 Switch II; other site 642492005577 Septum formation topological specificity factor MinE; Region: MinE; cl00538 642492005578 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 642492005579 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 642492005580 substrate binding site [chemical binding]; other site 642492005581 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 642492005582 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 642492005583 FeS/SAM binding site; other site 642492005584 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 642492005585 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 642492005586 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 642492005587 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 642492005588 homodimer interface [polypeptide binding]; other site 642492005589 oligonucleotide binding site [chemical binding]; other site 642492005590 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 642492005591 Protein of unknown function (DUF464); Region: DUF464; cl01080 642492005592 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 642492005593 GTPase CgtA; Reviewed; Region: obgE; PRK12297 642492005594 GTP1/OBG; Region: GTP1_OBG; pfam01018 642492005595 Obg GTPase; Region: Obg; cd01898 642492005596 G1 box; other site 642492005597 GTP/Mg2+ binding site [chemical binding]; other site 642492005598 Switch I region; other site 642492005599 G2 box; other site 642492005600 G3 box; other site 642492005601 Switch II region; other site 642492005602 G4 box; other site 642492005603 G5 box; other site 642492005604 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 642492005605 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 642492005606 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 642492005607 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 642492005608 active site 642492005609 (T/H)XGH motif; other site 642492005610 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 642492005611 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492005612 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 642492005613 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492005614 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492005615 Oligomerisation domain; Region: Oligomerisation; cl00519 642492005616 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492005617 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492005618 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 642492005619 SLBB domain; Region: SLBB; pfam10531 642492005620 comEA protein; Region: comE; TIGR01259 642492005621 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 642492005622 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492005623 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 642492005624 active site 642492005625 phosphorylation site [posttranslational modification] 642492005626 intermolecular recognition site; other site 642492005627 dimerization interface [polypeptide binding]; other site 642492005628 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 642492005629 DNA binding site [nucleotide binding] 642492005630 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 642492005631 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492005632 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 642492005633 dimerization interface [polypeptide binding]; other site 642492005634 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 642492005635 dimer interface [polypeptide binding]; other site 642492005636 phosphorylation site [posttranslational modification] 642492005637 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 642492005638 ATP binding site [chemical binding]; other site 642492005639 Mg2+ binding site [ion binding]; other site 642492005640 G-X-G motif; other site 642492005641 Sporulation and spore germination; Region: Germane; cl11253 642492005642 Sporulation and spore germination; Region: Germane; cl11253 642492005643 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 642492005644 Competence protein; Region: Competence; cl00471 642492005645 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492005646 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 642492005647 DNA polymerase III, delta subunit; Region: holA; TIGR01128 642492005648 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 642492005649 Germination protease; Region: Peptidase_A25; cl04057 642492005650 stage II sporulation protein P; Region: spore_II_P; TIGR02867 642492005651 GTP-binding protein LepA; Provisional; Region: PRK05433 642492005652 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 642492005653 G1 box; other site 642492005654 putative GEF interaction site [polypeptide binding]; other site 642492005655 GTP/Mg2+ binding site [chemical binding]; other site 642492005656 Switch I region; other site 642492005657 G2 box; other site 642492005658 G3 box; other site 642492005659 Switch II region; other site 642492005660 G4 box; other site 642492005661 G5 box; other site 642492005662 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 642492005663 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 642492005664 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 642492005665 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 642492005666 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 642492005667 FeS/SAM binding site; other site 642492005668 HemN C-terminal domain; Region: HemN_C; pfam06969 642492005669 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 642492005670 Helix-turn-helix domains; Region: HTH; cl00088 642492005671 HrcA protein C terminal domain; Region: HrcA; pfam01628 642492005672 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 642492005673 dimer interface [polypeptide binding]; other site 642492005674 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 642492005675 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 642492005676 Fungal protein of unknown function (DUF1742); Region: DUF1742; pfam08432 642492005677 chaperone protein DnaJ; Provisional; Region: PRK10767 642492005678 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 642492005679 HSP70 interaction site [polypeptide binding]; other site 642492005680 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 642492005681 substrate binding site [polypeptide binding]; other site 642492005682 dimer interface [polypeptide binding]; other site 642492005683 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 642492005684 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 642492005685 S-adenosylmethionine binding site [chemical binding]; other site 642492005686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 642492005687 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 642492005688 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 642492005689 Response regulator receiver domain; Region: Response_reg; pfam00072 642492005690 active site 642492005691 phosphorylation site [posttranslational modification] 642492005692 intermolecular recognition site; other site 642492005693 dimerization interface [polypeptide binding]; other site 642492005694 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 642492005695 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 642492005696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492005697 catalytic residue [active] 642492005698 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 642492005699 THUMP domain; Region: THUMP; cl12076 642492005700 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 642492005701 Ligand Binding Site [chemical binding]; other site 642492005702 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 642492005703 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 642492005704 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 642492005705 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 642492005706 FeS/SAM binding site; other site 642492005707 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 642492005708 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 642492005709 ferric uptake regulator; Provisional; Region: fur; PRK09462 642492005710 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492005711 metal binding site 2 [ion binding]; metal-binding site 642492005712 putative DNA binding helix; other site 642492005713 metal binding site 1 [ion binding]; metal-binding site 642492005714 dimer interface [polypeptide binding]; other site 642492005715 structural Zn2+ binding site [ion binding]; other site 642492005716 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 642492005717 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492005718 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 642492005719 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 642492005720 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492005721 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 642492005722 DNA binding residues [nucleotide binding] 642492005723 putative protease; Provisional; Region: PRK15452 642492005724 Peptidase family U32; Region: Peptidase_U32; cl03113 642492005725 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 642492005726 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 642492005727 S-adenosylmethionine binding site [chemical binding]; other site 642492005728 YceG-like family; Region: YceG; pfam02618 642492005729 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 642492005730 dimerization interface [polypeptide binding]; other site 642492005731 Flavoprotein; Region: Flavoprotein; cl08021 642492005732 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 642492005733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005734 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 642492005735 TSCPD domain; Region: TSCPD; cl14834 642492005736 aspartate kinase I; Reviewed; Region: PRK08210 642492005737 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 642492005738 nucleotide binding site [chemical binding]; other site 642492005739 substrate binding site [chemical binding]; other site 642492005740 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 642492005741 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492005742 Clp protease; Region: CLP_protease; pfam00574 642492005743 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 642492005744 active site 642492005745 YlzJ-like protein; Region: YlzJ; pfam14035 642492005746 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 642492005747 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 642492005748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492005749 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 642492005750 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 642492005751 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 642492005752 Potassium binding sites [ion binding]; other site 642492005753 Cesium cation binding sites [ion binding]; other site 642492005754 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 642492005755 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 642492005756 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 642492005757 homodimer interface [polypeptide binding]; other site 642492005758 NADP binding site [chemical binding]; other site 642492005759 substrate binding site [chemical binding]; other site 642492005760 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 642492005761 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 642492005762 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 642492005763 FeS/SAM binding site; other site 642492005764 TRAM domain; Region: TRAM; cl01282 642492005765 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 642492005766 flavoprotein, HI0933 family; Region: TIGR00275 642492005767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005769 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 642492005770 putative acyl-acceptor binding pocket; other site 642492005771 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 642492005772 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 642492005773 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 642492005774 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 642492005775 motif 1; other site 642492005776 active site 642492005777 motif 2; other site 642492005778 motif 3; other site 642492005779 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 642492005780 DHHA1 domain; Region: DHHA1; pfam02272 642492005781 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 642492005782 GatB domain; Region: GatB_Yqey; cl11497 642492005783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 642492005784 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 642492005785 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492005786 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 642492005787 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492005788 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 642492005789 DNA binding site [nucleotide binding] 642492005790 Int/Topo IB signature motif; other site 642492005791 active site 642492005792 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 642492005793 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 642492005794 NAD(P) binding site [chemical binding]; other site 642492005795 catalytic residues [active] 642492005796 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 642492005797 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 642492005798 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492005799 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 642492005800 putative ligand binding site [chemical binding]; other site 642492005801 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492005802 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492005803 active site 642492005804 metal binding site [ion binding]; metal-binding site 642492005805 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492005806 Bacterial Ig-like domain; Region: Big_5; cl01012 642492005807 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 642492005808 glutamate dehydrogenase; Provisional; Region: PRK09414 642492005809 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 642492005810 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 642492005811 NAD(P) binding site [chemical binding]; other site 642492005812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492005813 Zn2+ binding site [ion binding]; other site 642492005814 Mg2+ binding site [ion binding]; other site 642492005815 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 642492005816 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492005817 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 642492005818 FeS/SAM binding site; other site 642492005819 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 642492005820 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 642492005821 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 642492005822 minor groove reading motif; other site 642492005823 helix-hairpin-helix signature motif; other site 642492005824 substrate binding pocket [chemical binding]; other site 642492005825 active site 642492005826 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 642492005827 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492005828 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 642492005829 putative ADP-binding pocket [chemical binding]; other site 642492005830 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 642492005831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492005832 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492005833 Family description; Region: UvrD_C_2; cl15862 642492005834 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 642492005835 VanW like protein; Region: VanW; pfam04294 642492005836 G5 domain; Region: G5; pfam07501 642492005837 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492005838 Helix-turn-helix domains; Region: HTH; cl00088 642492005839 Helix-turn-helix domains; Region: HTH; cl00088 642492005840 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 642492005841 Transglycosylase; Region: Transgly; cl07896 642492005842 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492005843 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 642492005844 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 642492005845 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 642492005846 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 642492005847 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 642492005848 substrate binding site [chemical binding]; other site 642492005849 ATP binding site [chemical binding]; other site 642492005850 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 642492005851 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 642492005852 HflX GTPase family; Region: HflX; cd01878 642492005853 G1 box; other site 642492005854 GTP/Mg2+ binding site [chemical binding]; other site 642492005855 Switch I region; other site 642492005856 G2 box; other site 642492005857 G3 box; other site 642492005858 Switch II region; other site 642492005859 G4 box; other site 642492005860 G5 box; other site 642492005861 Uncharacterized conserved protein [Function unknown]; Region: COG1739 642492005862 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 642492005863 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 642492005864 Transcriptional regulator; Region: Transcrip_reg; cl00361 642492005865 PilZ domain; Region: PilZ; cl01260 642492005866 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 642492005867 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 642492005868 S-adenosylmethionine binding site [chemical binding]; other site 642492005869 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 642492005870 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 642492005871 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 642492005872 ATP binding site [chemical binding]; other site 642492005873 putative Mg++ binding site [ion binding]; other site 642492005874 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 642492005875 nucleotide binding region [chemical binding]; other site 642492005876 ATP-binding site [chemical binding]; other site 642492005877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492005878 Helix-turn-helix domains; Region: HTH; cl00088 642492005879 putative transposase OrfB; Reviewed; Region: PHA02517 642492005880 HTH-like domain; Region: HTH_21; pfam13276 642492005881 Integrase core domain; Region: rve; cl01316 642492005882 Integrase core domain; Region: rve_3; cl15866 642492005883 Cellulose binding domain; Region: CBM_2; cl02709 642492005884 Cellulose binding domain; Region: CBM_2; cl02709 642492005885 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 642492005886 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 642492005887 active site 642492005888 NTP binding site [chemical binding]; other site 642492005889 metal binding triad [ion binding]; metal-binding site 642492005890 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 642492005891 classical (c) SDRs; Region: SDR_c; cd05233 642492005892 NAD(P) binding site [chemical binding]; other site 642492005893 active site 642492005894 Phospholipid methyltransferase; Region: PEMT; cl00763 642492005895 Flagellin N-methylase; Region: FliB; cl00497 642492005896 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 642492005897 active site 642492005898 substrate binding site [chemical binding]; other site 642492005899 catalytic site [active] 642492005900 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 642492005901 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 642492005902 active site 642492005903 metal binding site [ion binding]; metal-binding site 642492005904 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 642492005905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005906 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 642492005907 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 642492005908 non-heme iron binding site [ion binding]; other site 642492005909 Heme NO binding; Region: HNOB; cl15268 642492005910 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492005911 dimer interface [polypeptide binding]; other site 642492005912 putative CheW interface [polypeptide binding]; other site 642492005913 Predicted membrane protein [Function unknown]; Region: COG2860 642492005914 UPF0126 domain; Region: UPF0126; pfam03458 642492005915 UPF0126 domain; Region: UPF0126; pfam03458 642492005916 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 642492005917 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 642492005918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492005919 catalytic residue [active] 642492005920 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 642492005921 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 642492005922 GIY-YIG motif/motif A; other site 642492005923 active site 642492005924 catalytic site [active] 642492005925 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 642492005926 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 642492005927 GIY-YIG motif/motif A; other site 642492005928 active site 642492005929 catalytic site [active] 642492005930 putative DNA binding site [nucleotide binding]; other site 642492005931 metal binding site [ion binding]; metal-binding site 642492005932 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 642492005933 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 642492005934 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 642492005935 Ligand Binding Site [chemical binding]; other site 642492005936 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 642492005937 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 642492005938 LexA repressor; Validated; Region: PRK00215 642492005939 Helix-turn-helix domains; Region: HTH; cl00088 642492005940 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 642492005941 Catalytic site [active] 642492005942 NAD synthetase; Reviewed; Region: nadE; PRK02628 642492005943 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 642492005944 multimer interface [polypeptide binding]; other site 642492005945 active site 642492005946 catalytic triad [active] 642492005947 protein interface 1 [polypeptide binding]; other site 642492005948 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 642492005949 homodimer interface [polypeptide binding]; other site 642492005950 NAD binding pocket [chemical binding]; other site 642492005951 ATP binding pocket [chemical binding]; other site 642492005952 Mg binding site [ion binding]; other site 642492005953 active-site loop [active] 642492005954 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 642492005955 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 642492005956 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492005957 catalytic residue [active] 642492005958 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 642492005959 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492005960 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 642492005961 Sm1 motif; other site 642492005962 intra - hexamer interaction site; other site 642492005963 inter - hexamer interaction site [polypeptide binding]; other site 642492005964 nucleotide binding pocket [chemical binding]; other site 642492005965 Sm2 motif; other site 642492005966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492005967 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 642492005968 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 642492005969 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 642492005970 ATP binding site [chemical binding]; other site 642492005971 Mg2+ binding site [ion binding]; other site 642492005972 G-X-G motif; other site 642492005973 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 642492005974 ATP binding site [chemical binding]; other site 642492005975 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 642492005976 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 642492005977 MutS domain I; Region: MutS_I; pfam01624 642492005978 MutS domain II; Region: MutS_II; pfam05188 642492005979 MutS family domain IV; Region: MutS_IV; pfam05190 642492005980 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 642492005981 Walker A/P-loop; other site 642492005982 ATP binding site [chemical binding]; other site 642492005983 Q-loop/lid; other site 642492005984 ABC transporter signature motif; other site 642492005985 Walker B; other site 642492005986 D-loop; other site 642492005987 H-loop/switch region; other site 642492005988 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 642492005989 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 642492005990 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 642492005991 FeS/SAM binding site; other site 642492005992 TRAM domain; Region: TRAM; cl01282 642492005993 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492005994 MatE; Region: MatE; cl10513 642492005995 MatE; Region: MatE; cl10513 642492005996 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 642492005997 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 642492005998 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 642492005999 dimer interface [polypeptide binding]; other site 642492006000 phosphorylation site [posttranslational modification] 642492006001 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 642492006002 ATP binding site [chemical binding]; other site 642492006003 Mg2+ binding site [ion binding]; other site 642492006004 G-X-G motif; other site 642492006005 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 642492006006 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 642492006007 active site 642492006008 phosphorylation site [posttranslational modification] 642492006009 intermolecular recognition site; other site 642492006010 dimerization interface [polypeptide binding]; other site 642492006011 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 642492006012 DNA binding site [nucleotide binding] 642492006013 pyruvate kinase; Provisional; Region: PRK06354 642492006014 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 642492006015 domain interfaces; other site 642492006016 active site 642492006017 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 642492006018 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492006019 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492006020 Zn2+ binding site [ion binding]; other site 642492006021 Mg2+ binding site [ion binding]; other site 642492006022 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 642492006023 Ligand Binding Site [chemical binding]; other site 642492006024 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 642492006025 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 642492006026 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492006027 catalytic residue [active] 642492006028 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 642492006029 Pyruvate formate lyase 1; Region: PFL1; cd01678 642492006030 coenzyme A binding site [chemical binding]; other site 642492006031 active site 642492006032 catalytic residues [active] 642492006033 glycine loop; other site 642492006034 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 642492006035 active site 642492006036 dimer interfaces [polypeptide binding]; other site 642492006037 catalytic residues [active] 642492006038 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 642492006039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006040 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 642492006041 active site 642492006042 substrate binding site [chemical binding]; other site 642492006043 catalytic site [active] 642492006044 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 642492006045 Family description; Region: UvrD_C_2; cl15862 642492006046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492006047 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 642492006048 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 642492006049 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 642492006050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492006051 LytB protein; Region: LYTB; cl00507 642492006052 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 642492006053 cytidylate kinase; Provisional; Region: cmk; PRK00023 642492006054 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 642492006055 CMP-binding site; other site 642492006056 The sites determining sugar specificity; other site 642492006057 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 642492006058 homotrimer interaction site [polypeptide binding]; other site 642492006059 active site 642492006060 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 642492006061 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 642492006062 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 642492006063 putative active site [active] 642492006064 oxaloacetate decarboxylase; Provisional; Region: PRK12331 642492006065 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 642492006066 active site 642492006067 catalytic residues [active] 642492006068 metal binding site [ion binding]; metal-binding site 642492006069 homodimer binding site [polypeptide binding]; other site 642492006070 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 642492006071 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 642492006072 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 642492006073 carboxyltransferase (CT) interaction site; other site 642492006074 biotinylation site [posttranslational modification]; other site 642492006075 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 642492006076 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 642492006077 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 642492006078 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 642492006079 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 642492006080 RNA binding surface [nucleotide binding]; other site 642492006081 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 642492006082 active site 642492006083 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492006084 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 642492006085 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 642492006086 ScpA/B protein; Region: ScpA_ScpB; cl00598 642492006087 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492006088 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492006089 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 642492006090 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 642492006091 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 642492006092 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 642492006093 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 642492006094 Sulfatase; Region: Sulfatase; cl10460 642492006095 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 642492006096 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 642492006097 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 642492006098 Int/Topo IB signature motif; other site 642492006099 active site 642492006100 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492006101 active site 642492006102 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 642492006103 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 642492006104 RNA binding surface [nucleotide binding]; other site 642492006105 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 642492006106 active site 642492006107 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 642492006108 DivIVA protein; Region: DivIVA; pfam05103 642492006109 DivIVA domain; Region: DivI1A_domain; TIGR03544 642492006110 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 642492006111 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 642492006112 RNA binding surface [nucleotide binding]; other site 642492006113 Protein of unknown function (DUF552); Region: DUF552; cl00775 642492006114 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 642492006115 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492006116 catalytic residue [active] 642492006117 HlyD family secretion protein; Region: HlyD_2; pfam12700 642492006118 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 642492006119 HlyD family secretion protein; Region: HlyD_2; pfam12700 642492006120 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 642492006121 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 642492006122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492006123 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 642492006124 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 642492006125 GTP-binding protein Der; Reviewed; Region: PRK00093 642492006126 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 642492006127 G1 box; other site 642492006128 GTP/Mg2+ binding site [chemical binding]; other site 642492006129 Switch I region; other site 642492006130 G2 box; other site 642492006131 Switch II region; other site 642492006132 G3 box; other site 642492006133 G4 box; other site 642492006134 G5 box; other site 642492006135 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 642492006136 G1 box; other site 642492006137 GTP/Mg2+ binding site [chemical binding]; other site 642492006138 Switch I region; other site 642492006139 G2 box; other site 642492006140 G3 box; other site 642492006141 Switch II region; other site 642492006142 G4 box; other site 642492006143 G5 box; other site 642492006144 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 642492006145 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 642492006146 Restriction endonuclease; Region: Mrr_cat; cl00516 642492006147 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 642492006148 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 642492006149 RNA/DNA hybrid binding site [nucleotide binding]; other site 642492006150 active site 642492006151 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 642492006152 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 642492006153 Catalytic site [active] 642492006154 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 642492006155 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 642492006156 Catalytic site [active] 642492006157 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 642492006158 Catalytic site [active] 642492006159 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 642492006160 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 642492006161 GTP/Mg2+ binding site [chemical binding]; other site 642492006162 G4 box; other site 642492006163 G5 box; other site 642492006164 G1 box; other site 642492006165 Switch I region; other site 642492006166 G2 box; other site 642492006167 G3 box; other site 642492006168 Switch II region; other site 642492006169 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 642492006170 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 642492006171 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 642492006172 RimM N-terminal domain; Region: RimM; pfam01782 642492006173 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 642492006174 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 642492006175 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 642492006176 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 642492006177 signal recognition particle protein; Provisional; Region: PRK10867 642492006178 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 642492006179 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 642492006180 P loop; other site 642492006181 GTP binding site [chemical binding]; other site 642492006182 Signal peptide binding domain; Region: SRP_SPB; pfam02978 642492006183 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492006184 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 642492006185 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 642492006186 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 642492006187 P loop; other site 642492006188 GTP binding site [chemical binding]; other site 642492006189 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 642492006190 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 642492006191 Walker A/P-loop; other site 642492006192 ATP binding site [chemical binding]; other site 642492006193 Q-loop/lid; other site 642492006194 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 642492006195 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 642492006196 Q-loop/lid; other site 642492006197 ABC transporter signature motif; other site 642492006198 Walker B; other site 642492006199 D-loop; other site 642492006200 H-loop/switch region; other site 642492006201 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 642492006202 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 642492006203 dimerization interface [polypeptide binding]; other site 642492006204 active site 642492006205 metal binding site [ion binding]; metal-binding site 642492006206 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 642492006207 Phosphopantetheine attachment site; Region: PP-binding; cl09936 642492006208 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 642492006209 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 642492006210 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 642492006211 Acetokinase family; Region: Acetate_kinase; cl01029 642492006212 propionate/acetate kinase; Provisional; Region: PRK12379 642492006213 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 642492006214 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 642492006215 hypothetical protein; Provisional; Region: PRK13670 642492006216 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492006217 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 642492006218 transcriptional repressor CodY; Validated; Region: PRK04158 642492006219 CodY GAF-like domain; Region: CodY; pfam06018 642492006220 Helix-turn-helix domains; Region: HTH; cl00088 642492006221 DNA topoisomerase I; Validated; Region: PRK05582 642492006222 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 642492006223 active site 642492006224 interdomain interaction site; other site 642492006225 putative metal-binding site [ion binding]; other site 642492006226 nucleotide binding site [chemical binding]; other site 642492006227 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 642492006228 domain I; other site 642492006229 DNA binding groove [nucleotide binding] 642492006230 phosphate binding site [ion binding]; other site 642492006231 domain II; other site 642492006232 domain III; other site 642492006233 nucleotide binding site [chemical binding]; other site 642492006234 catalytic site [active] 642492006235 domain IV; other site 642492006236 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 642492006237 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 642492006238 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 642492006239 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 642492006240 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 642492006241 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 642492006242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006243 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 642492006244 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 642492006245 ATP cone domain; Region: ATP-cone; pfam03477 642492006246 sporulation sigma factor SigG; Reviewed; Region: PRK08215 642492006247 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006248 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492006249 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 642492006250 DNA binding residues [nucleotide binding] 642492006251 sporulation sigma factor SigE; Reviewed; Region: PRK08301 642492006252 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006253 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492006254 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 642492006255 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 642492006256 cell division protein FtsZ; Validated; Region: PRK09330 642492006257 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 642492006258 nucleotide binding site [chemical binding]; other site 642492006259 SulA interaction site; other site 642492006260 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 642492006261 Cell division protein FtsQ; Region: FtsQ; pfam03799 642492006262 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 642492006263 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 642492006264 hinge; other site 642492006265 active site 642492006266 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 642492006267 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 642492006268 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492006269 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 642492006270 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 642492006271 Mg++ binding site [ion binding]; other site 642492006272 putative catalytic motif [active] 642492006273 putative substrate binding site [chemical binding]; other site 642492006274 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 642492006275 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492006276 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492006277 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492006278 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 642492006279 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492006280 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492006281 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492006282 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 642492006283 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492006284 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492006285 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 642492006286 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 642492006287 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492006288 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492006289 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 642492006290 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 642492006291 Septum formation initiator; Region: DivIC; cl11433 642492006292 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 642492006293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492006294 cell division protein MraZ; Reviewed; Region: PRK00326 642492006295 MraZ protein; Region: MraZ; pfam02381 642492006296 MraZ protein; Region: MraZ; pfam02381 642492006297 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 642492006298 GTP-binding protein YchF; Reviewed; Region: PRK09601 642492006299 YchF GTPase; Region: YchF; cd01900 642492006300 G1 box; other site 642492006301 GTP/Mg2+ binding site [chemical binding]; other site 642492006302 Switch I region; other site 642492006303 G2 box; other site 642492006304 Switch II region; other site 642492006305 G3 box; other site 642492006306 G4 box; other site 642492006307 G5 box; other site 642492006308 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 642492006309 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 642492006310 Mechanosensitive ion channel; Region: MS_channel; pfam00924 642492006311 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 642492006312 phosphopeptide binding site; other site 642492006313 AAA domain; Region: AAA_31; pfam13614 642492006314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006315 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 642492006316 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 642492006317 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 642492006318 active site 642492006319 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 642492006320 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 642492006321 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 642492006322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492006323 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 642492006324 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 642492006325 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 642492006326 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006327 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492006328 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 642492006329 DNA binding residues [nucleotide binding] 642492006330 DNA primase; Validated; Region: dnaG; PRK05667 642492006331 CHC2 zinc finger; Region: zf-CHC2; cl15369 642492006332 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 642492006333 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 642492006334 active site 642492006335 metal binding site [ion binding]; metal-binding site 642492006336 interdomain interaction site; other site 642492006337 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 642492006338 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 642492006339 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492006340 Zn2+ binding site [ion binding]; other site 642492006341 Mg2+ binding site [ion binding]; other site 642492006342 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 642492006343 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 642492006344 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492006345 Transposase domain (DUF772); Region: DUF772; cl15789 642492006346 Transposase domain (DUF772); Region: DUF772; cl15789 642492006347 pyruvate phosphate dikinase; Provisional; Region: PRK09279 642492006348 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 642492006349 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 642492006350 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 642492006351 glycyl-tRNA synthetase; Provisional; Region: PRK04173 642492006352 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 642492006353 motif 1; other site 642492006354 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 642492006355 active site 642492006356 motif 2; other site 642492006357 motif 3; other site 642492006358 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 642492006359 anticodon binding site; other site 642492006360 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 642492006361 Putative zinc-finger; Region: zf-HC2; cl15806 642492006362 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 642492006363 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006364 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 642492006365 DNA binding residues [nucleotide binding] 642492006366 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492006367 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 642492006368 DNA binding site [nucleotide binding] 642492006369 Int/Topo IB signature motif; other site 642492006370 active site 642492006371 Winged helix-turn helix; Region: HTH_29; pfam13551 642492006372 Helix-turn-helix domains; Region: HTH; cl00088 642492006373 Helix-turn-helix domains; Region: HTH; cl00088 642492006374 Winged helix-turn helix; Region: HTH_33; pfam13592 642492006375 Integrase core domain; Region: rve; cl01316 642492006376 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 642492006377 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006378 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 642492006379 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006380 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492006381 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 642492006382 catalytic residues [active] 642492006383 catalytic nucleophile [active] 642492006384 Presynaptic Site I dimer interface [polypeptide binding]; other site 642492006385 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 642492006386 Synaptic Flat tetramer interface [polypeptide binding]; other site 642492006387 Synaptic Site I dimer interface [polypeptide binding]; other site 642492006388 DNA binding site [nucleotide binding] 642492006389 Restriction endonuclease; Region: Mrr_cat; cl00516 642492006390 Protein of unknown function DUF262; Region: DUF262; cl14890 642492006391 Protein of unknown function DUF262; Region: DUF262; cl14890 642492006392 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492006393 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 642492006394 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 642492006395 FAD binding domain; Region: FAD_binding_4; pfam01565 642492006396 Berberine and berberine like; Region: BBE; pfam08031 642492006397 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492006398 FOG: PKD repeat [General function prediction only]; Region: COG3291 642492006399 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492006400 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492006401 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 642492006402 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 642492006403 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 642492006404 Peptidase family U32; Region: Peptidase_U32; cl03113 642492006405 Collagenase; Region: DUF3656; pfam12392 642492006406 Peptidase family U32; Region: Peptidase_U32; cl03113 642492006407 Cell division protein ZapA; Region: ZapA; cl01146 642492006408 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 642492006409 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 642492006410 Walker A motif; other site 642492006411 ATP binding site [chemical binding]; other site 642492006412 Walker B motif; other site 642492006413 arginine finger; other site 642492006414 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 642492006415 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 642492006416 RuvA N terminal domain; Region: RuvA_N; pfam01330 642492006417 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 642492006418 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 642492006419 nucleotide binding site [chemical binding]; other site 642492006420 homotetrameric interface [polypeptide binding]; other site 642492006421 putative phosphate binding site [ion binding]; other site 642492006422 putative allosteric binding site; other site 642492006423 DNA Topoisomerase IV; Region: TOP4c; smart00434 642492006424 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 642492006425 CAP-like domain; other site 642492006426 active site 642492006427 primary dimer interface [polypeptide binding]; other site 642492006428 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 642492006429 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 642492006430 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 642492006431 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 642492006432 ATP binding site [chemical binding]; other site 642492006433 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 642492006434 active site 642492006435 putative metal-binding site [ion binding]; other site 642492006436 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 642492006437 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 642492006438 active site 642492006439 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 642492006440 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 642492006441 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 642492006442 active site 642492006443 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 642492006444 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 642492006445 oligomer interface [polypeptide binding]; other site 642492006446 putative active site [active] 642492006447 metal binding site [ion binding]; metal-binding site 642492006448 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 642492006449 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 642492006450 4Fe-4S binding domain; Region: Fer4; cl02805 642492006451 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492006452 4Fe-4S binding domain; Region: Fer4; cl02805 642492006453 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492006454 Putative Fe-S cluster; Region: FeS; pfam04060 642492006455 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 642492006456 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 642492006457 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 642492006458 catalytic loop [active] 642492006459 iron binding site [ion binding]; other site 642492006460 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 642492006461 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 642492006462 4Fe-4S binding domain; Region: Fer4; cl02805 642492006463 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492006464 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 642492006465 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 642492006466 dimer interface [polypeptide binding]; other site 642492006467 [2Fe-2S] cluster binding site [ion binding]; other site 642492006468 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 642492006469 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 642492006470 SLBB domain; Region: SLBB; pfam10531 642492006471 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 642492006472 4Fe-4S binding domain; Region: Fer4; cl02805 642492006473 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492006474 4Fe-4S binding domain; Region: Fer4; cl02805 642492006475 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 642492006476 dimer interface [polypeptide binding]; other site 642492006477 [2Fe-2S] cluster binding site [ion binding]; other site 642492006478 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 642492006479 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 642492006480 putative dimer interface [polypeptide binding]; other site 642492006481 [2Fe-2S] cluster binding site [ion binding]; other site 642492006482 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 642492006483 4Fe-4S binding domain; Region: Fer4; cl02805 642492006484 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 642492006485 4Fe-4S binding domain; Region: Fer4; cl02805 642492006486 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492006487 Putative Fe-S cluster; Region: FeS; pfam04060 642492006488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 642492006489 DRTGG domain; Region: DRTGG; cl12147 642492006490 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 642492006491 Divergent AAA domain; Region: AAA_4; pfam04326 642492006492 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 642492006493 Flavin Reductases; Region: FlaRed; cl00801 642492006494 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 642492006495 CAAX protease self-immunity; Region: Abi; cl00558 642492006496 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 642492006497 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 642492006498 RNase E interface [polypeptide binding]; other site 642492006499 trimer interface [polypeptide binding]; other site 642492006500 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 642492006501 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 642492006502 oligomer interface [polypeptide binding]; other site 642492006503 RNA binding site [nucleotide binding]; other site 642492006504 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 642492006505 putative nucleic acid binding region [nucleotide binding]; other site 642492006506 G-X-X-G motif; other site 642492006507 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 642492006508 RNA binding site [nucleotide binding]; other site 642492006509 domain interface; other site 642492006510 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 642492006511 16S/18S rRNA binding site [nucleotide binding]; other site 642492006512 S13e-L30e interaction site [polypeptide binding]; other site 642492006513 25S rRNA binding site [nucleotide binding]; other site 642492006514 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 642492006515 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 642492006516 active site 642492006517 Riboflavin kinase; Region: Flavokinase; cl03312 642492006518 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 642492006519 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 642492006520 RNA binding site [nucleotide binding]; other site 642492006521 active site 642492006522 Ribosome-binding factor A; Region: RBFA; cl00542 642492006523 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 642492006524 translation initiation factor IF-2; Region: IF-2; TIGR00487 642492006525 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 642492006526 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 642492006527 G1 box; other site 642492006528 putative GEF interaction site [polypeptide binding]; other site 642492006529 GTP/Mg2+ binding site [chemical binding]; other site 642492006530 Switch I region; other site 642492006531 G2 box; other site 642492006532 G3 box; other site 642492006533 Switch II region; other site 642492006534 G4 box; other site 642492006535 G5 box; other site 642492006536 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 642492006537 Translation-initiation factor 2; Region: IF-2; pfam11987 642492006538 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 642492006539 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 642492006540 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 642492006541 putative RNA binding cleft [nucleotide binding]; other site 642492006542 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 642492006543 NusA N-terminal domain; Region: NusA_N; pfam08529 642492006544 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 642492006545 RNA binding site [nucleotide binding]; other site 642492006546 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 642492006547 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 642492006548 G-X-X-G motif; other site 642492006549 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 642492006550 ribosome maturation protein RimP; Reviewed; Region: PRK00092 642492006551 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 642492006552 Sm1 motif; other site 642492006553 predicted subunit interaction site [polypeptide binding]; other site 642492006554 RNA binding pocket [nucleotide binding]; other site 642492006555 Sm2 motif; other site 642492006556 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 642492006557 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 642492006558 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 642492006559 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 642492006560 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 642492006561 active site 642492006562 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 642492006563 protein binding site [polypeptide binding]; other site 642492006564 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 642492006565 putative substrate binding region [chemical binding]; other site 642492006566 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 642492006567 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 642492006568 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 642492006569 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 642492006570 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 642492006571 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 642492006572 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 642492006573 catalytic residue [active] 642492006574 putative FPP diphosphate binding site; other site 642492006575 putative FPP binding hydrophobic cleft; other site 642492006576 dimer interface [polypeptide binding]; other site 642492006577 putative IPP diphosphate binding site; other site 642492006578 ribosome recycling factor; Reviewed; Region: frr; PRK00083 642492006579 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 642492006580 hinge region; other site 642492006581 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 642492006582 putative nucleotide binding site [chemical binding]; other site 642492006583 uridine monophosphate binding site [chemical binding]; other site 642492006584 homohexameric interface [polypeptide binding]; other site 642492006585 elongation factor Ts; Provisional; Region: tsf; PRK09377 642492006586 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 642492006587 Elongation factor TS; Region: EF_TS; pfam00889 642492006588 Elongation factor TS; Region: EF_TS; pfam00889 642492006589 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 642492006590 rRNA interaction site [nucleotide binding]; other site 642492006591 S8 interaction site; other site 642492006592 putative laminin-1 binding site; other site 642492006593 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 642492006594 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 642492006595 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006596 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492006597 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 642492006598 DNA binding residues [nucleotide binding] 642492006599 CheD chemotactic sensory transduction; Region: CheD; cl00810 642492006600 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 642492006601 Chemotaxis phosphatase CheX; Region: CheX; cl15816 642492006602 Chemotaxis phosphatase CheX; Region: CheX; cl15816 642492006603 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 642492006604 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 642492006605 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 642492006606 putative binding surface; other site 642492006607 active site 642492006608 P2 response regulator binding domain; Region: P2; pfam07194 642492006609 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 642492006610 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 642492006611 ATP binding site [chemical binding]; other site 642492006612 Mg2+ binding site [ion binding]; other site 642492006613 G-X-G motif; other site 642492006614 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 642492006615 CheB methylesterase; Region: CheB_methylest; pfam01339 642492006616 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 642492006617 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 642492006618 P-loop; other site 642492006619 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 642492006620 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 642492006621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006622 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 642492006623 FHIPEP family; Region: FHIPEP; pfam00771 642492006624 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 642492006625 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 642492006626 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 642492006627 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 642492006628 FliP family; Region: FliP; cl00593 642492006629 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 642492006630 Response regulator receiver domain; Region: Response_reg; pfam00072 642492006631 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 642492006632 active site 642492006633 phosphorylation site [posttranslational modification] 642492006634 intermolecular recognition site; other site 642492006635 dimerization interface [polypeptide binding]; other site 642492006636 flagellar motor switch protein; Validated; Region: PRK08119 642492006637 Chemotaxis phosphatase CheX; Region: CheX; cl15816 642492006638 Chemotaxis phosphatase CheX; Region: CheX; cl15816 642492006639 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 642492006640 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 642492006641 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 642492006642 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 642492006643 flagellar motor protein MotS; Reviewed; Region: PRK06925 642492006644 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 642492006645 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 642492006646 ligand binding site [chemical binding]; other site 642492006647 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 642492006648 flagellar motor protein MotP; Reviewed; Region: PRK06926 642492006649 Flagellar protein (FlbD); Region: FlbD; cl00683 642492006650 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 642492006651 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 642492006652 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 642492006653 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 642492006654 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 642492006655 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 642492006656 aconitate hydratase 1; Region: aconitase_1; TIGR01341 642492006657 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 642492006658 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 642492006659 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 642492006660 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 642492006661 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 642492006662 Walker A motif/ATP binding site; other site 642492006663 Walker B motif; other site 642492006664 flagellar assembly protein H; Validated; Region: fliH; PRK06669 642492006665 Plant ATP synthase F0; Region: YMF19; cl07975 642492006666 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 642492006667 MgtE intracellular N domain; Region: MgtE_N; cl15244 642492006668 FliG C-terminal domain; Region: FliG_C; pfam01706 642492006669 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 642492006670 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 642492006671 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 642492006672 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 642492006673 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 642492006674 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 642492006675 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 642492006676 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 642492006677 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 642492006678 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 642492006679 tetramer interface [polypeptide binding]; other site 642492006680 active site 642492006681 phosphodiesterase; Provisional; Region: PRK12704 642492006682 Plant ATP synthase F0; Region: YMF19; cl07975 642492006683 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492006684 recombinase A; Provisional; Region: recA; PRK09354 642492006685 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 642492006686 hexamer interface [polypeptide binding]; other site 642492006687 Walker A motif; other site 642492006688 ATP binding site [chemical binding]; other site 642492006689 Walker B motif; other site 642492006690 Competence-damaged protein; Region: CinA; cl00666 642492006691 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 642492006692 putative MPT binding site; other site 642492006693 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 642492006694 Protein of unknown function, DUF624; Region: DUF624; cl02369 642492006695 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 642492006696 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 642492006697 ANP binding site [chemical binding]; other site 642492006698 Substrate Binding Site II [chemical binding]; other site 642492006699 Substrate Binding Site I [chemical binding]; other site 642492006700 argininosuccinate lyase; Provisional; Region: PRK00855 642492006701 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 642492006702 active sites [active] 642492006703 tetramer interface [polypeptide binding]; other site 642492006704 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492006705 glycogen branching enzyme; Provisional; Region: PRK05402 642492006706 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492006707 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 642492006708 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 642492006709 active site 642492006710 catalytic site [active] 642492006711 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 642492006712 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 642492006713 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 642492006714 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492006715 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 642492006716 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492006717 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 642492006718 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 642492006719 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 642492006720 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 642492006721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 642492006722 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 642492006723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 642492006724 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 642492006725 active site 642492006726 homotetramer interface [polypeptide binding]; other site 642492006727 homodimer interface [polypeptide binding]; other site 642492006728 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 642492006729 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 642492006730 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 642492006731 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 642492006732 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 642492006733 substrate binding site [chemical binding]; other site 642492006734 glutamase interaction surface [polypeptide binding]; other site 642492006735 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 642492006736 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 642492006737 catalytic residues [active] 642492006738 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 642492006739 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 642492006740 putative active site [active] 642492006741 oxyanion strand; other site 642492006742 catalytic triad [active] 642492006743 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 642492006744 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 642492006745 putative active site pocket [active] 642492006746 4-fold oligomerization interface [polypeptide binding]; other site 642492006747 metal binding residues [ion binding]; metal-binding site 642492006748 3-fold/trimer interface [polypeptide binding]; other site 642492006749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492006750 Coenzyme A binding pocket [chemical binding]; other site 642492006751 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 642492006752 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 642492006753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492006754 homodimer interface [polypeptide binding]; other site 642492006755 catalytic residue [active] 642492006756 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 642492006757 histidinol dehydrogenase; Region: hisD; TIGR00069 642492006758 NAD binding site [chemical binding]; other site 642492006759 dimerization interface [polypeptide binding]; other site 642492006760 product binding site; other site 642492006761 substrate binding site [chemical binding]; other site 642492006762 zinc binding site [ion binding]; other site 642492006763 catalytic residues [active] 642492006764 ATP phosphoribosyltransferase; Region: HisG; cl15266 642492006765 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 642492006766 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 642492006767 dimer interface [polypeptide binding]; other site 642492006768 motif 1; other site 642492006769 active site 642492006770 motif 2; other site 642492006771 motif 3; other site 642492006772 Sel1 repeat; Region: Sel1; cl02723 642492006773 Sel1 repeat; Region: Sel1; cl02723 642492006774 Sel1 repeat; Region: Sel1; cl02723 642492006775 Sel1 repeat; Region: Sel1; cl02723 642492006776 Sel1 repeat; Region: Sel1; cl02723 642492006777 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 642492006778 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492006779 metal ion-dependent adhesion site (MIDAS); other site 642492006780 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 642492006781 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 642492006782 active site 642492006783 ATP binding site [chemical binding]; other site 642492006784 substrate binding site [chemical binding]; other site 642492006785 activation loop (A-loop); other site 642492006786 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 642492006787 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 642492006788 SelR domain; Region: SelR; pfam01641 642492006789 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492006790 putative efflux protein, MATE family; Region: matE; TIGR00797 642492006791 MatE; Region: MatE; cl10513 642492006792 MatE; Region: MatE; cl10513 642492006793 Cupin domain; Region: Cupin_2; cl09118 642492006794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492006795 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492006796 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492006797 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492006798 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492006799 Zn2+ binding site [ion binding]; other site 642492006800 Mg2+ binding site [ion binding]; other site 642492006801 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 642492006802 dimer interface [polypeptide binding]; other site 642492006803 conserved gate region; other site 642492006804 putative PBP binding loops; other site 642492006805 ABC-ATPase subunit interface; other site 642492006806 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492006807 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 642492006808 Walker A/P-loop; other site 642492006809 ATP binding site [chemical binding]; other site 642492006810 Q-loop/lid; other site 642492006811 ABC transporter signature motif; other site 642492006812 Walker B; other site 642492006813 D-loop; other site 642492006814 H-loop/switch region; other site 642492006815 NMT1/THI5 like; Region: NMT1; pfam09084 642492006816 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; cl15306 642492006817 substrate binding pocket [chemical binding]; other site 642492006818 NMT1-like family; Region: NMT1_2; cl15260 642492006819 membrane-bound complex binding site; other site 642492006820 aromatic acid decarboxylase; Validated; Region: PRK05920 642492006821 Flavoprotein; Region: Flavoprotein; cl08021 642492006822 UbiA prenyltransferase family; Region: UbiA; cl00337 642492006823 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 642492006824 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 642492006825 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 642492006826 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 642492006827 inhibitor-cofactor binding pocket; inhibition site 642492006828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492006829 catalytic residue [active] 642492006830 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 642492006831 Peptidase family U32; Region: Peptidase_U32; cl03113 642492006832 Peptidase family U32; Region: Peptidase_U32; cl03113 642492006833 FOG: CBS domain [General function prediction only]; Region: COG0517 642492006834 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 642492006835 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492006836 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 642492006837 putative active site pocket [active] 642492006838 cleavage site 642492006839 Predicted membrane protein [Function unknown]; Region: COG4684 642492006840 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 642492006841 putative active site [active] 642492006842 putative metal binding site [ion binding]; other site 642492006843 TIR domain; Region: TIR_2; cl15770 642492006844 Protein of unknown function (DUF419); Region: DUF419; cl15265 642492006845 NAD-dependent deacetylase; Provisional; Region: PRK00481 642492006846 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 642492006847 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 642492006848 Clp protease ATP binding subunit; Region: clpC; CHL00095 642492006849 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 642492006850 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 642492006851 Walker A motif; other site 642492006852 ATP binding site [chemical binding]; other site 642492006853 Walker B motif; other site 642492006854 arginine finger; other site 642492006855 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 642492006856 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 642492006857 ATP binding site [chemical binding]; other site 642492006858 Mg++ binding site [ion binding]; other site 642492006859 motif III; other site 642492006860 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 642492006861 nucleotide binding region [chemical binding]; other site 642492006862 ATP-binding site [chemical binding]; other site 642492006863 DbpA RNA binding domain; Region: DbpA; pfam03880 642492006864 Predicted membrane protein [Function unknown]; Region: COG2364 642492006865 DNA polymerase III PolC; Validated; Region: polC; PRK00448 642492006866 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 642492006867 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 642492006868 generic binding surface II; other site 642492006869 generic binding surface I; other site 642492006870 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 642492006871 active site 642492006872 substrate binding site [chemical binding]; other site 642492006873 catalytic site [active] 642492006874 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 642492006875 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 642492006876 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492006877 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492006878 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 642492006879 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492006880 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492006881 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492006882 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492006883 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 642492006884 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 642492006885 TraX protein; Region: TraX; cl05434 642492006886 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 642492006887 octamerization interface [polypeptide binding]; other site 642492006888 diferric-oxygen binding site [ion binding]; other site 642492006889 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 642492006890 ArsC family; Region: ArsC; pfam03960 642492006891 putative ArsC-like catalytic residues; other site 642492006892 putative TRX-like catalytic residues [active] 642492006893 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492006894 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492006895 Coenzyme A binding pocket [chemical binding]; other site 642492006896 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492006897 metal binding site 2 [ion binding]; metal-binding site 642492006898 putative DNA binding helix; other site 642492006899 metal binding site 1 [ion binding]; metal-binding site 642492006900 dimer interface [polypeptide binding]; other site 642492006901 structural Zn2+ binding site [ion binding]; other site 642492006902 hypothetical protein; Validated; Region: PRK07682 642492006903 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 642492006904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492006905 homodimer interface [polypeptide binding]; other site 642492006906 catalytic residue [active] 642492006907 Helix-turn-helix domains; Region: HTH; cl00088 642492006908 Helix-turn-helix domains; Region: HTH; cl00088 642492006909 SpoVA protein; Region: SpoVA; cl04298 642492006910 stage V sporulation protein AD; Provisional; Region: PRK12404 642492006911 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 642492006912 SpoVA protein; Region: SpoVA; cl04298 642492006913 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 642492006914 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 642492006915 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 642492006916 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 642492006917 FeS/SAM binding site; other site 642492006918 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492006919 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 642492006920 putative active site [active] 642492006921 dimerization interface [polypeptide binding]; other site 642492006922 putative tRNAtyr binding site [nucleotide binding]; other site 642492006923 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 642492006924 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492006925 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 642492006926 synthetase active site [active] 642492006927 NTP binding site [chemical binding]; other site 642492006928 metal binding site [ion binding]; metal-binding site 642492006929 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 642492006930 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 642492006931 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 642492006932 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492006933 active site 642492006934 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 642492006935 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 642492006936 RNA binding site [nucleotide binding]; other site 642492006937 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 642492006938 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 642492006939 putative ATP binding site [chemical binding]; other site 642492006940 putative substrate interface [chemical binding]; other site 642492006941 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 642492006942 catalytic residues [active] 642492006943 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 642492006944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492006945 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492006946 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 642492006947 active site residue [active] 642492006948 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 642492006949 CPxP motif; other site 642492006950 DsrE/DsrF-like family; Region: DrsE; cl00672 642492006951 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492006952 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 642492006953 ligand binding site [chemical binding]; other site 642492006954 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 642492006955 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 642492006956 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492006957 Coenzyme A binding pocket [chemical binding]; other site 642492006958 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492006959 Iron permease FTR1 family; Region: FTR1; cl00475 642492006960 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492006961 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492006962 dimer interface [polypeptide binding]; other site 642492006963 putative CheW interface [polypeptide binding]; other site 642492006964 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 642492006965 Protein export membrane protein; Region: SecD_SecF; cl14618 642492006966 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 642492006967 Protein export membrane protein; Region: SecD_SecF; cl14618 642492006968 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 642492006969 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 642492006970 FeS/SAM binding site; other site 642492006971 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 642492006972 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 642492006973 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 642492006974 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 642492006975 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492006976 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006977 Walker A/P-loop; other site 642492006978 ATP binding site [chemical binding]; other site 642492006979 Q-loop/lid; other site 642492006980 ABC transporter signature motif; other site 642492006981 Walker B; other site 642492006982 D-loop; other site 642492006983 H-loop/switch region; other site 642492006984 ABC transporter; Region: ABC_tran_2; pfam12848 642492006985 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492006986 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492006987 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492006988 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 642492006989 Walker A/P-loop; other site 642492006990 ATP binding site [chemical binding]; other site 642492006991 Q-loop/lid; other site 642492006992 ABC transporter signature motif; other site 642492006993 Walker B; other site 642492006994 D-loop; other site 642492006995 H-loop/switch region; other site 642492006996 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492006997 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492006998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492006999 Walker A/P-loop; other site 642492007000 ATP binding site [chemical binding]; other site 642492007001 Q-loop/lid; other site 642492007002 ABC transporter signature motif; other site 642492007003 Walker B; other site 642492007004 D-loop; other site 642492007005 H-loop/switch region; other site 642492007006 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492007007 Helix-turn-helix domains; Region: HTH; cl00088 642492007008 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 642492007009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007010 Coenzyme A binding pocket [chemical binding]; other site 642492007011 sugar phosphate phosphatase; Provisional; Region: PRK10513 642492007012 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 642492007013 active site 642492007014 motif I; other site 642492007015 motif II; other site 642492007016 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492007017 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 642492007018 MPT binding site; other site 642492007019 trimer interface [polypeptide binding]; other site 642492007020 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 642492007021 Putative carbohydrate binding domain; Region: CBM_X; cl05621 642492007022 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 642492007023 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 642492007024 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 642492007025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007026 ABC transporter signature motif; other site 642492007027 Walker B; other site 642492007028 D-loop; other site 642492007029 H-loop/switch region; other site 642492007030 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 642492007031 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 642492007032 putative dimer interface [polypeptide binding]; other site 642492007033 putative anticodon binding site; other site 642492007034 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 642492007035 homodimer interface [polypeptide binding]; other site 642492007036 motif 1; other site 642492007037 motif 2; other site 642492007038 active site 642492007039 motif 3; other site 642492007040 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 642492007041 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 642492007042 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 642492007043 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 642492007044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007045 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492007046 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 642492007047 Cation transport protein; Region: TrkH; cl10514 642492007048 pyruvate kinase; Provisional; Region: PRK06354 642492007049 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 642492007050 domain interfaces; other site 642492007051 active site 642492007052 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 642492007053 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 642492007054 active site 642492007055 ADP/pyrophosphate binding site [chemical binding]; other site 642492007056 dimerization interface [polypeptide binding]; other site 642492007057 allosteric effector site; other site 642492007058 fructose-1,6-bisphosphate binding site; other site 642492007059 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 642492007060 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 642492007061 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 642492007062 generic binding surface II; other site 642492007063 generic binding surface I; other site 642492007064 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 642492007065 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 642492007066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492007067 homodimer interface [polypeptide binding]; other site 642492007068 catalytic residue [active] 642492007069 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492007070 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 642492007071 dimer interface [polypeptide binding]; other site 642492007072 conserved gate region; other site 642492007073 putative PBP binding loops; other site 642492007074 ABC-ATPase subunit interface; other site 642492007075 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492007076 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 642492007077 dimer interface [polypeptide binding]; other site 642492007078 conserved gate region; other site 642492007079 putative PBP binding loops; other site 642492007080 ABC-ATPase subunit interface; other site 642492007081 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492007082 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492007083 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 642492007084 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 642492007085 active site 642492007086 phosphorylation site [posttranslational modification] 642492007087 intermolecular recognition site; other site 642492007088 dimerization interface [polypeptide binding]; other site 642492007089 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492007090 Histidine kinase; Region: His_kinase; pfam06580 642492007091 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 642492007092 ATP binding site [chemical binding]; other site 642492007093 Mg2+ binding site [ion binding]; other site 642492007094 G-X-G motif; other site 642492007095 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 642492007096 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492007097 Probable beta-xylosidase; Provisional; Region: PLN03080 642492007098 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 642492007099 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 642492007100 Fibronectin type III-like domain; Region: Fn3-like; cl15273 642492007101 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492007102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007103 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 642492007104 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 642492007105 putative tRNA-binding site [nucleotide binding]; other site 642492007106 B3/4 domain; Region: B3_4; cl11458 642492007107 tRNA synthetase B5 domain; Region: B5; cl08394 642492007108 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 642492007109 dimer interface [polypeptide binding]; other site 642492007110 motif 1; other site 642492007111 motif 3; other site 642492007112 motif 2; other site 642492007113 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 642492007114 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 642492007115 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 642492007116 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 642492007117 dimer interface [polypeptide binding]; other site 642492007118 motif 1; other site 642492007119 active site 642492007120 motif 2; other site 642492007121 motif 3; other site 642492007122 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492007123 Dockerin type I repeat; Region: Dockerin_1; pfam00404 642492007124 Cellulose binding domain; Region: CBM_3; cl03026 642492007125 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492007126 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 642492007127 dockerin binding interface; other site 642492007128 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 642492007129 active site 642492007130 ADP/pyrophosphate binding site [chemical binding]; other site 642492007131 dimerization interface [polypeptide binding]; other site 642492007132 allosteric effector site; other site 642492007133 fructose-1,6-bisphosphate binding site; other site 642492007134 prephenate dehydrogenase; Validated; Region: PRK06545 642492007135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007136 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492007137 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492007138 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 642492007139 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 642492007140 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 642492007141 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 642492007142 ATP binding site [chemical binding]; other site 642492007143 Mg++ binding site [ion binding]; other site 642492007144 motif III; other site 642492007145 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 642492007146 nucleotide binding region [chemical binding]; other site 642492007147 ATP-binding site [chemical binding]; other site 642492007148 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 642492007149 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 642492007150 motif II; other site 642492007151 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492007152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007153 Coenzyme A binding pocket [chemical binding]; other site 642492007154 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492007155 Coat F domain; Region: Coat_F; cl15836 642492007156 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492007157 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 642492007158 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 642492007159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492007160 Helix-turn-helix domains; Region: HTH; cl00088 642492007161 Helix-turn-helix domains; Region: HTH; cl00088 642492007162 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 642492007163 Domain of unknown function DUF87; Region: DUF87; pfam01935 642492007164 HerA helicase [Replication, recombination, and repair]; Region: COG0433 642492007165 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 642492007166 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492007167 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 642492007168 catalytic residues [active] 642492007169 catalytic nucleophile [active] 642492007170 Presynaptic Site I dimer interface [polypeptide binding]; other site 642492007171 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 642492007172 Synaptic Flat tetramer interface [polypeptide binding]; other site 642492007173 Synaptic Site I dimer interface [polypeptide binding]; other site 642492007174 DNA binding site [nucleotide binding] 642492007175 CHC2 zinc finger; Region: zf-CHC2; cl15369 642492007176 hypothetical protein; Provisional; Region: PRK14709 642492007177 D5 N terminal like; Region: D5_N; cl07360 642492007178 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 642492007179 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492007180 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492007181 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 642492007182 non-specific DNA binding site [nucleotide binding]; other site 642492007183 salt bridge; other site 642492007184 sequence-specific DNA binding site [nucleotide binding]; other site 642492007185 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492007186 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 642492007187 Int/Topo IB signature motif; other site 642492007188 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 642492007189 dimer interface [polypeptide binding]; other site 642492007190 ssDNA binding site [nucleotide binding]; other site 642492007191 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492007192 tellurium resistance terB-like protein; Region: terB_like; cd07177 642492007193 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 642492007194 metal binding site [ion binding]; metal-binding site 642492007195 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 642492007196 HSP70 interaction site [polypeptide binding]; other site 642492007197 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 642492007198 dihydrodipicolinate synthase; Region: dapA; TIGR00674 642492007199 dimer interface [polypeptide binding]; other site 642492007200 active site 642492007201 catalytic residue [active] 642492007202 ERF superfamily; Region: ERF; pfam04404 642492007203 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 642492007204 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 642492007205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492007206 Helix-turn-helix domains; Region: HTH; cl00088 642492007207 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 642492007208 putative dimerization interface [polypeptide binding]; other site 642492007209 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 642492007210 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 642492007211 motif II; other site 642492007212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007213 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 642492007214 Walker A/P-loop; other site 642492007215 ATP binding site [chemical binding]; other site 642492007216 Q-loop/lid; other site 642492007217 ABC transporter signature motif; other site 642492007218 Walker B; other site 642492007219 D-loop; other site 642492007220 H-loop/switch region; other site 642492007221 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 642492007222 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 642492007223 DXD motif; other site 642492007224 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492007225 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 642492007226 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 642492007227 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 642492007228 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492007229 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 642492007230 dimer interface [polypeptide binding]; other site 642492007231 conserved gate region; other site 642492007232 putative PBP binding loops; other site 642492007233 ABC-ATPase subunit interface; other site 642492007234 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492007235 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 642492007236 dimer interface [polypeptide binding]; other site 642492007237 conserved gate region; other site 642492007238 putative PBP binding loops; other site 642492007239 ABC-ATPase subunit interface; other site 642492007240 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492007241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492007242 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 642492007243 active site 642492007244 phosphorylation site [posttranslational modification] 642492007245 intermolecular recognition site; other site 642492007246 dimerization interface [polypeptide binding]; other site 642492007247 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 642492007248 DNA binding site [nucleotide binding] 642492007249 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 642492007250 dimer interface [polypeptide binding]; other site 642492007251 phosphorylation site [posttranslational modification] 642492007252 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 642492007253 ATP binding site [chemical binding]; other site 642492007254 Mg2+ binding site [ion binding]; other site 642492007255 G-X-G motif; other site 642492007256 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 642492007257 homotrimer interaction site [polypeptide binding]; other site 642492007258 putative active site [active] 642492007259 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 642492007260 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 642492007261 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492007262 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492007263 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 642492007264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007265 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 642492007266 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 642492007267 heme binding pocket [chemical binding]; other site 642492007268 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 642492007269 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 642492007270 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 642492007271 FeS/SAM binding site; other site 642492007272 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 642492007273 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 642492007274 FeS/SAM binding site; other site 642492007275 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 642492007276 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 642492007277 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 642492007278 G1 box; other site 642492007279 GTP/Mg2+ binding site [chemical binding]; other site 642492007280 Switch I region; other site 642492007281 G2 box; other site 642492007282 Switch II region; other site 642492007283 G3 box; other site 642492007284 G4 box; other site 642492007285 G5 box; other site 642492007286 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 642492007287 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 642492007288 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 642492007289 putative L-serine binding site [chemical binding]; other site 642492007290 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 642492007291 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 642492007292 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 642492007293 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492007294 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 642492007295 Rhomboid family; Region: Rhomboid; cl11446 642492007296 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 642492007297 Catalytic site [active] 642492007298 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 642492007299 putative dimer interface [polypeptide binding]; other site 642492007300 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 642492007301 FAD binding pocket [chemical binding]; other site 642492007302 FAD binding motif [chemical binding]; other site 642492007303 phosphate binding motif [ion binding]; other site 642492007304 beta-alpha-beta structure motif; other site 642492007305 NAD binding pocket [chemical binding]; other site 642492007306 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 642492007307 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 642492007308 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492007309 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492007310 Walker A/P-loop; other site 642492007311 ATP binding site [chemical binding]; other site 642492007312 Q-loop/lid; other site 642492007313 ABC transporter signature motif; other site 642492007314 Walker B; other site 642492007315 D-loop; other site 642492007316 H-loop/switch region; other site 642492007317 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492007318 FtsX-like permease family; Region: FtsX; cl15850 642492007319 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 642492007320 FtsX-like permease family; Region: FtsX; cl15850 642492007321 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007322 dimer interface [polypeptide binding]; other site 642492007323 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 642492007324 putative CheW interface [polypeptide binding]; other site 642492007325 Uncharacterized conserved protein [Function unknown]; Region: COG3287 642492007326 FIST N domain; Region: FIST; cl10701 642492007327 FIST C domain; Region: FIST_C; pfam10442 642492007328 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 642492007329 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492007330 Membrane transport protein; Region: Mem_trans; cl09117 642492007331 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 642492007332 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 642492007333 putative active site [active] 642492007334 putative catalytic site [active] 642492007335 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492007336 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 642492007337 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 642492007338 Chromate transporter; Region: Chromate_transp; pfam02417 642492007339 Chromate transporter; Region: Chromate_transp; pfam02417 642492007340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492007341 Helix-turn-helix domains; Region: HTH; cl00088 642492007342 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 642492007343 putative dimerization interface [polypeptide binding]; other site 642492007344 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492007345 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007346 dimer interface [polypeptide binding]; other site 642492007347 putative CheW interface [polypeptide binding]; other site 642492007348 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 642492007349 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 642492007350 putative active site [active] 642492007351 metal binding site [ion binding]; metal-binding site 642492007352 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492007353 Helix-turn-helix domains; Region: HTH; cl00088 642492007354 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492007355 dimerization interface [polypeptide binding]; other site 642492007356 Mechanosensitive ion channel; Region: MS_channel; pfam00924 642492007357 Transcriptional regulators [Transcription]; Region: FadR; COG2186 642492007358 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492007359 DNA-binding site [nucleotide binding]; DNA binding site 642492007360 FCD domain; Region: FCD; cl11656 642492007361 LrgB-like family; Region: LrgB; cl00596 642492007362 LrgA family; Region: LrgA; cl00608 642492007363 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 642492007364 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 642492007365 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 642492007366 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 642492007367 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492007368 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 642492007369 dimer interface [polypeptide binding]; other site 642492007370 catalytic triad [active] 642492007371 peroxidatic and resolving cysteines [active] 642492007372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 642492007373 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 642492007374 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492007375 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007376 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 642492007377 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 642492007378 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 642492007379 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 642492007380 substrate binding pocket [chemical binding]; other site 642492007381 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 642492007382 B12 binding site [chemical binding]; other site 642492007383 cobalt ligand [ion binding]; other site 642492007384 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 642492007385 EamA-like transporter family; Region: EamA; cl01037 642492007386 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 642492007387 EamA-like transporter family; Region: EamA; cl01037 642492007388 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 642492007389 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 642492007390 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492007391 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492007392 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 642492007393 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 642492007394 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 642492007395 active site 642492007396 NAD binding site [chemical binding]; other site 642492007397 metal binding site [ion binding]; metal-binding site 642492007398 hybrid cluster protein; Provisional; Region: PRK05290 642492007399 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 642492007400 ACS interaction site; other site 642492007401 CODH interaction site; other site 642492007402 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 642492007403 hybrid metal cluster; other site 642492007404 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 642492007405 hypothetical E4 protein; Provisional; Region: PHA03418 642492007406 S-layer homology domain; Region: SLH; pfam00395 642492007407 S-layer homology domain; Region: SLH; pfam00395 642492007408 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492007409 Putative esterase; Region: Esterase; pfam00756 642492007410 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 642492007411 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492007412 Cellulose binding domain; Region: CBM_2; cl02709 642492007413 Cupin domain; Region: Cupin_2; cl09118 642492007414 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492007415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007416 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492007417 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 642492007418 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 642492007419 EcsC protein family; Region: EcsC; pfam12787 642492007420 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 642492007421 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 642492007422 active site 642492007423 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 642492007424 homopentamer interface [polypeptide binding]; other site 642492007425 active site 642492007426 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 642492007427 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 642492007428 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 642492007429 dimerization interface [polypeptide binding]; other site 642492007430 active site 642492007431 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 642492007432 Lumazine binding domain; Region: Lum_binding; pfam00677 642492007433 Lumazine binding domain; Region: Lum_binding; pfam00677 642492007434 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 642492007435 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 642492007436 catalytic motif [active] 642492007437 Zn binding site [ion binding]; other site 642492007438 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 642492007439 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 642492007440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007441 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 642492007442 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 642492007443 G1 box; other site 642492007444 GTP/Mg2+ binding site [chemical binding]; other site 642492007445 Switch I region; other site 642492007446 G2 box; other site 642492007447 G3 box; other site 642492007448 Switch II region; other site 642492007449 G4 box; other site 642492007450 G5 box; other site 642492007451 Nucleoside recognition; Region: Gate; cl00486 642492007452 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 642492007453 Nucleoside recognition; Region: Gate; cl00486 642492007454 FeoA domain; Region: FeoA; cl00838 642492007455 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 642492007456 CotJB protein; Region: CotJB; pfam12652 642492007457 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 642492007458 dinuclear metal binding motif [ion binding]; other site 642492007459 TEA/ATTS domain family; Region: TEA; cl02603 642492007460 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492007461 active site 642492007462 catalytic triad [active] 642492007463 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 642492007464 active site 642492007465 catalytic residues [active] 642492007466 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492007467 active site 642492007468 catalytic triad [active] 642492007469 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492007470 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 642492007471 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 642492007472 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492007473 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 642492007474 Baseplate J-like protein; Region: Baseplate_J; cl01294 642492007475 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 642492007476 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 642492007477 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 642492007478 putative peptidoglycan binding site; other site 642492007479 Phage-related minor tail protein [Function unknown]; Region: COG5281 642492007480 tape measure domain; Region: tape_meas_nterm; TIGR02675 642492007481 Phage XkdN-like protein; Region: XkdN; pfam08890 642492007482 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 642492007483 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 642492007484 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 642492007485 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 642492007486 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 642492007487 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 642492007488 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 642492007489 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 642492007490 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492007491 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 642492007492 Phage terminase large subunit; Region: Terminase_3; cl12054 642492007493 Terminase-like family; Region: Terminase_6; pfam03237 642492007494 Phage terminase small subunit; Region: Phage_terminase; pfam10668 642492007495 Terminase small subunit; Region: Terminase_2; cl01513 642492007496 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492007497 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 642492007498 Int/Topo IB signature motif; other site 642492007499 active site 642492007500 DNA binding site [nucleotide binding] 642492007501 YopX protein; Region: YopX; cl09859 642492007502 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492007503 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492007504 DNA binding site [nucleotide binding] 642492007505 substrate interaction site [chemical binding]; other site 642492007506 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; cl02940 642492007507 beta-clamp/clamp loader binding surface; other site 642492007508 Endodeoxyribonuclease RusA; Region: RusA; cl01885 642492007509 hypothetical protein; Validated; Region: PRK08116 642492007510 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007511 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 642492007512 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 642492007513 RecT family; Region: RecT; cl04285 642492007514 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007515 AAA domain; Region: AAA_23; pfam13476 642492007516 Walker A/P-loop; other site 642492007517 ATP binding site [chemical binding]; other site 642492007518 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 642492007519 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 642492007520 non-specific DNA binding site [nucleotide binding]; other site 642492007521 salt bridge; other site 642492007522 sequence-specific DNA binding site [nucleotide binding]; other site 642492007523 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 642492007524 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 642492007525 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 642492007526 BRO family, N-terminal domain; Region: Bro-N; cl10591 642492007527 ORF6C domain; Region: ORF6C; pfam10552 642492007528 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492007529 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492007530 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 642492007531 non-specific DNA binding site [nucleotide binding]; other site 642492007532 salt bridge; other site 642492007533 sequence-specific DNA binding site [nucleotide binding]; other site 642492007534 Domain of unknown function (DUF955); Region: DUF955; cl01076 642492007535 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 642492007536 catalytic residues [active] 642492007537 catalytic nucleophile [active] 642492007538 Recombinase; Region: Recombinase; pfam07508 642492007539 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 642492007540 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 642492007541 dinuclear metal binding motif [ion binding]; other site 642492007542 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492007543 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007544 Coenzyme A binding pocket [chemical binding]; other site 642492007545 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492007546 Pectin methylesterase [Carbohydrate transport and metabolism]; Region: PemB; COG4677 642492007547 Pectinesterase; Region: Pectinesterase; cl01911 642492007548 S-layer homology domain; Region: SLH; pfam00395 642492007549 S-layer homology domain; Region: SLH; pfam00395 642492007550 S-layer homology domain; Region: SLH; pfam00395 642492007551 AAA domain; Region: AAA_21; pfam13304 642492007552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007553 ABC transporter signature motif; other site 642492007554 Walker B; other site 642492007555 D-loop; other site 642492007556 H-loop/switch region; other site 642492007557 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 642492007558 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 642492007559 putative active site [active] 642492007560 putative NTP binding site [chemical binding]; other site 642492007561 putative nucleic acid binding site [nucleotide binding]; other site 642492007562 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 642492007563 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 642492007564 SmpB-tmRNA interface; other site 642492007565 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 642492007566 EamA-like transporter family; Region: EamA; cl01037 642492007567 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 642492007568 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 642492007569 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 642492007570 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492007571 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492007572 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 642492007573 amidase catalytic site [active] 642492007574 Zn binding residues [ion binding]; other site 642492007575 substrate binding site [chemical binding]; other site 642492007576 ribonuclease R; Region: RNase_R; TIGR02063 642492007577 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 642492007578 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 642492007579 RNB domain; Region: RNB; pfam00773 642492007580 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 642492007581 RNA binding site [nucleotide binding]; other site 642492007582 Preprotein translocase SecG subunit; Region: SecG; cl09123 642492007583 enolase; Provisional; Region: eno; PRK00077 642492007584 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 642492007585 dimer interface [polypeptide binding]; other site 642492007586 metal binding site [ion binding]; metal-binding site 642492007587 substrate binding pocket [chemical binding]; other site 642492007588 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492007589 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 642492007590 Sulfatase; Region: Sulfatase; cl10460 642492007591 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 642492007592 substrate binding site [chemical binding]; other site 642492007593 dimer interface [polypeptide binding]; other site 642492007594 catalytic triad [active] 642492007595 Phosphoglycerate kinase; Region: PGK; pfam00162 642492007596 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 642492007597 substrate binding site [chemical binding]; other site 642492007598 hinge regions; other site 642492007599 ADP binding site [chemical binding]; other site 642492007600 catalytic site [active] 642492007601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007602 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 642492007603 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 642492007604 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 642492007605 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 642492007606 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 642492007607 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007608 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007609 PhoU domain; Region: PhoU; pfam01895 642492007610 PhoU domain; Region: PhoU; pfam01895 642492007611 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 642492007612 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007613 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007614 PhoU domain; Region: PhoU; pfam01895 642492007615 PhoU domain; Region: PhoU; pfam01895 642492007616 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 642492007617 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 642492007618 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 642492007619 trimerization site [polypeptide binding]; other site 642492007620 active site 642492007621 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 642492007622 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 642492007623 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492007624 catalytic residue [active] 642492007625 Helix-turn-helix domains; Region: HTH; cl00088 642492007626 Rrf2 family protein; Region: rrf2_super; TIGR00738 642492007627 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 642492007628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 642492007629 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 642492007630 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 642492007631 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492007632 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007633 dimer interface [polypeptide binding]; other site 642492007634 putative CheW interface [polypeptide binding]; other site 642492007635 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 642492007636 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492007637 PYR/PP interface [polypeptide binding]; other site 642492007638 dimer interface [polypeptide binding]; other site 642492007639 TPP binding site [chemical binding]; other site 642492007640 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 642492007641 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 642492007642 TPP-binding site [chemical binding]; other site 642492007643 dimer interface [polypeptide binding]; other site 642492007644 Dehydratase family; Region: ILVD_EDD; cl00340 642492007645 6-phosphogluconate dehydratase; Region: edd; TIGR01196 642492007646 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 642492007647 homodimer interface [polypeptide binding]; other site 642492007648 substrate-cofactor binding pocket; other site 642492007649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492007650 catalytic residue [active] 642492007651 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 642492007652 tartrate dehydrogenase; Provisional; Region: PRK08194 642492007653 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 642492007654 substrate binding site [chemical binding]; other site 642492007655 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 642492007656 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 642492007657 active site 642492007658 catalytic residues [active] 642492007659 metal binding site [ion binding]; metal-binding site 642492007660 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 642492007661 2-isopropylmalate synthase; Validated; Region: PRK00915 642492007662 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 642492007663 active site 642492007664 catalytic residues [active] 642492007665 metal binding site [ion binding]; metal-binding site 642492007666 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 642492007667 ketol-acid reductoisomerase; Provisional; Region: PRK05479 642492007668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007669 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 642492007670 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 642492007671 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 642492007672 putative valine binding site [chemical binding]; other site 642492007673 dimer interface [polypeptide binding]; other site 642492007674 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 642492007675 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 642492007676 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492007677 PYR/PP interface [polypeptide binding]; other site 642492007678 dimer interface [polypeptide binding]; other site 642492007679 TPP binding site [chemical binding]; other site 642492007680 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 642492007681 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 642492007682 TPP-binding site [chemical binding]; other site 642492007683 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 642492007684 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 642492007685 G1 box; other site 642492007686 putative GEF interaction site [polypeptide binding]; other site 642492007687 GTP/Mg2+ binding site [chemical binding]; other site 642492007688 Switch I region; other site 642492007689 G2 box; other site 642492007690 G3 box; other site 642492007691 Switch II region; other site 642492007692 G4 box; other site 642492007693 G5 box; other site 642492007694 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 642492007695 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 642492007696 Cupin domain; Region: Cupin_2; cl09118 642492007697 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492007698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007699 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 642492007700 4Fe-4S binding domain; Region: Fer4; cl02805 642492007701 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492007702 Cellulose binding domain; Region: CBM_2; cl02709 642492007703 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 642492007704 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 642492007705 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492007706 Cellulose binding domain; Region: CBM_2; cl02709 642492007707 Cellulose binding domain; Region: CBM_3; cl03026 642492007708 Putative esterase; Region: Esterase; pfam00756 642492007709 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492007710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492007711 Helix-turn-helix domains; Region: HTH; cl00088 642492007712 Helix-turn-helix domains; Region: HTH; cl00088 642492007713 putative transposase OrfB; Reviewed; Region: PHA02517 642492007714 HTH-like domain; Region: HTH_21; pfam13276 642492007715 Integrase core domain; Region: rve; cl01316 642492007716 Integrase core domain; Region: rve_3; cl15866 642492007717 DNA topoisomerase III; Provisional; Region: PRK07726 642492007718 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 642492007719 active site 642492007720 putative interdomain interaction site [polypeptide binding]; other site 642492007721 putative metal-binding site [ion binding]; other site 642492007722 putative nucleotide binding site [chemical binding]; other site 642492007723 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 642492007724 domain I; other site 642492007725 DNA binding groove [nucleotide binding] 642492007726 phosphate binding site [ion binding]; other site 642492007727 domain II; other site 642492007728 domain III; other site 642492007729 nucleotide binding site [chemical binding]; other site 642492007730 catalytic site [active] 642492007731 domain IV; other site 642492007732 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 642492007733 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 642492007734 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 642492007735 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492007736 rod shape-determining protein MreC; Provisional; Region: PRK13922 642492007737 Acyltransferase family; Region: Acyl_transf_3; pfam01757 642492007738 OpgC protein; Region: OpgC_C; cl00792 642492007739 YCII-related domain; Region: YCII; cl00999 642492007740 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 642492007741 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492007742 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492007743 Homoserine O-succinyltransferase; Region: HTS; pfam04204 642492007744 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 642492007745 proposed active site lysine [active] 642492007746 conserved cys residue [active] 642492007747 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 642492007748 synthetase active site [active] 642492007749 NTP binding site [chemical binding]; other site 642492007750 metal binding site [ion binding]; metal-binding site 642492007751 MatE; Region: MatE; cl10513 642492007752 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492007753 MatE; Region: MatE; cl10513 642492007754 recombination factor protein RarA; Reviewed; Region: PRK13342 642492007755 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 642492007756 Walker A motif; other site 642492007757 ATP binding site [chemical binding]; other site 642492007758 Walker B motif; other site 642492007759 arginine finger; other site 642492007760 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 642492007761 Helix-turn-helix domains; Region: HTH; cl00088 642492007762 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 642492007763 putative active site [active] 642492007764 catalytic site [active] 642492007765 diaminopimelate decarboxylase; Region: lysA; TIGR01048 642492007766 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 642492007767 active site 642492007768 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492007769 substrate binding site [chemical binding]; other site 642492007770 catalytic residues [active] 642492007771 dimer interface [polypeptide binding]; other site 642492007772 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492007773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007774 dimer interface [polypeptide binding]; other site 642492007775 putative CheW interface [polypeptide binding]; other site 642492007776 Cache domain; Region: Cache_1; pfam02743 642492007777 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492007778 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 642492007779 active site 642492007780 metal binding site [ion binding]; metal-binding site 642492007781 Fasciclin domain; Region: Fasciclin; cl02663 642492007782 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 642492007783 Helix-turn-helix domains; Region: HTH; cl00088 642492007784 Integrase core domain; Region: rve; cl01316 642492007785 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 642492007786 Helix-turn-helix domains; Region: HTH; cl00088 642492007787 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 642492007788 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492007789 Preprotein translocase subunit; Region: YajC; cl00806 642492007790 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 642492007791 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 642492007792 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 642492007793 Tetramer interface [polypeptide binding]; other site 642492007794 active site 642492007795 FMN-binding site [chemical binding]; other site 642492007796 CAAX protease self-immunity; Region: Abi; cl00558 642492007797 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 642492007798 cardiolipin synthetase; Reviewed; Region: PRK12452 642492007799 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 642492007800 putative active site [active] 642492007801 catalytic site [active] 642492007802 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 642492007803 putative active site [active] 642492007804 catalytic site [active] 642492007805 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 642492007806 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 642492007807 active site 2 [active] 642492007808 active site 1 [active] 642492007809 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 642492007810 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 642492007811 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 642492007812 YoaP-like; Region: YoaP; pfam14268 642492007813 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 642492007814 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 642492007815 RNA binding surface [nucleotide binding]; other site 642492007816 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 642492007817 probable active site [active] 642492007818 Stage II sporulation protein; Region: SpoIID; pfam08486 642492007819 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 642492007820 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 642492007821 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 642492007822 regulatory protein interface [polypeptide binding]; other site 642492007823 active site 642492007824 regulatory phosphorylation site [posttranslational modification]; other site 642492007825 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 642492007826 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 642492007827 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 642492007828 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 642492007829 phosphate binding site [ion binding]; other site 642492007830 putative substrate binding pocket [chemical binding]; other site 642492007831 dimer interface [polypeptide binding]; other site 642492007832 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 642492007833 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 642492007834 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 642492007835 FAD binding domain; Region: FAD_binding_4; pfam01565 642492007836 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 642492007837 exonuclease SbcC; Region: sbcc; TIGR00618 642492007838 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 642492007839 Walker A/P-loop; other site 642492007840 ATP binding site [chemical binding]; other site 642492007841 Q-loop/lid; other site 642492007842 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 642492007843 ABC transporter signature motif; other site 642492007844 Walker B; other site 642492007845 D-loop; other site 642492007846 H-loop/switch region; other site 642492007847 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 642492007848 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 642492007849 active site 642492007850 metal binding site [ion binding]; metal-binding site 642492007851 DNA binding site [nucleotide binding] 642492007852 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 642492007853 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 642492007854 DsrE/DsrF-like family; Region: DrsE; cl00672 642492007855 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 642492007856 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492007857 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 642492007858 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 642492007859 dimer interface [polypeptide binding]; other site 642492007860 conserved gate region; other site 642492007861 putative PBP binding loops; other site 642492007862 ABC-ATPase subunit interface; other site 642492007863 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492007864 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 642492007865 dimer interface [polypeptide binding]; other site 642492007866 conserved gate region; other site 642492007867 putative PBP binding loops; other site 642492007868 ABC-ATPase subunit interface; other site 642492007869 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 642492007870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007871 Walker A/P-loop; other site 642492007872 ATP binding site [chemical binding]; other site 642492007873 Q-loop/lid; other site 642492007874 ABC transporter signature motif; other site 642492007875 Walker B; other site 642492007876 D-loop; other site 642492007877 H-loop/switch region; other site 642492007878 TOBE domain; Region: TOBE_2; cl01440 642492007879 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 642492007880 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 642492007881 non-specific DNA binding site [nucleotide binding]; other site 642492007882 salt bridge; other site 642492007883 sequence-specific DNA binding site [nucleotide binding]; other site 642492007884 Cupin domain; Region: Cupin_2; cl09118 642492007885 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 642492007886 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492007887 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492007888 FtsX-like permease family; Region: FtsX; cl15850 642492007889 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492007890 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492007891 FtsX-like permease family; Region: FtsX; cl15850 642492007892 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492007893 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492007894 Walker A/P-loop; other site 642492007895 ATP binding site [chemical binding]; other site 642492007896 Q-loop/lid; other site 642492007897 ABC transporter signature motif; other site 642492007898 Walker B; other site 642492007899 D-loop; other site 642492007900 H-loop/switch region; other site 642492007901 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 642492007902 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 642492007903 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 642492007904 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 642492007905 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492007906 carbohydrate binding site [chemical binding]; other site 642492007907 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492007908 carbohydrate binding site [chemical binding]; other site 642492007909 pullulanase, type I; Region: pulA_typeI; TIGR02104 642492007910 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 642492007911 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 642492007912 Ca binding site [ion binding]; other site 642492007913 active site 642492007914 catalytic site [active] 642492007915 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 642492007916 Transposase; Region: DEDD_Tnp_IS110; pfam01548 642492007917 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 642492007918 ribosomal protein L20; Region: rpl20; CHL00068 642492007919 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 642492007920 23S rRNA binding site [nucleotide binding]; other site 642492007921 L21 binding site [polypeptide binding]; other site 642492007922 L13 binding site [polypeptide binding]; other site 642492007923 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 642492007924 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 642492007925 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 642492007926 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 642492007927 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 642492007928 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 642492007929 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 642492007930 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 642492007931 active site 642492007932 dimer interface [polypeptide binding]; other site 642492007933 motif 1; other site 642492007934 motif 2; other site 642492007935 motif 3; other site 642492007936 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 642492007937 anticodon binding site; other site 642492007938 Protein of unknown function (DUF805); Region: DUF805; cl01224 642492007939 YtxC-like family; Region: YtxC; cl08500 642492007940 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 642492007941 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 642492007942 dimerization interface [polypeptide binding]; other site 642492007943 domain crossover interface; other site 642492007944 redox-dependent activation switch; other site 642492007945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007946 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 642492007947 S-adenosylmethionine binding site [chemical binding]; other site 642492007948 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 642492007949 Domain of unknown function DUF21; Region: DUF21; pfam01595 642492007950 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 642492007951 Transporter associated domain; Region: CorC_HlyC; cl08393 642492007952 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 642492007953 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 642492007954 dihydrodipicolinate synthase; Region: dapA; TIGR00674 642492007955 dimer interface [polypeptide binding]; other site 642492007956 active site 642492007957 catalytic residue [active] 642492007958 dihydrodipicolinate reductase; Provisional; Region: PRK00048 642492007959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492007960 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 642492007961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492007962 Walker A motif; other site 642492007963 ATP binding site [chemical binding]; other site 642492007964 Walker B motif; other site 642492007965 Protein of unknown function DUF45; Region: DUF45; cl00636 642492007966 single-stranded DNA-binding protein; Provisional; Region: PRK05813 642492007967 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 642492007968 dimer interface [polypeptide binding]; other site 642492007969 ssDNA binding site [nucleotide binding]; other site 642492007970 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492007971 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 642492007972 NodB motif; other site 642492007973 active site 642492007974 catalytic site [active] 642492007975 metal binding site [ion binding]; metal-binding site 642492007976 UV-endonuclease UvdE; Region: UvdE; cl10036 642492007977 NlpC/P60 family; Region: NLPC_P60; cl11438 642492007978 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 642492007979 Bacterial SH3 domain; Region: SH3_3; cl02551 642492007980 NlpC/P60 family; Region: NLPC_P60; cl11438 642492007981 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 642492007982 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 642492007983 active site 642492007984 catalytic residues [active] 642492007985 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 642492007986 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492007987 DNA binding site [nucleotide binding] 642492007988 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 642492007989 putative dimerization interface [polypeptide binding]; other site 642492007990 putative ligand binding site [chemical binding]; other site 642492007991 galactokinase; Provisional; Region: PRK05322 642492007992 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 642492007993 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 642492007994 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 642492007995 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 642492007996 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 642492007997 NAD binding site [chemical binding]; other site 642492007998 homodimer interface [polypeptide binding]; other site 642492007999 active site 642492008000 substrate binding site [chemical binding]; other site 642492008001 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 642492008002 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 642492008003 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 642492008004 Bacitracin resistance protein BacA; Region: BacA; cl00858 642492008005 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 642492008006 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 642492008007 Ca binding site [ion binding]; other site 642492008008 active site 642492008009 catalytic site [active] 642492008010 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 642492008011 dimer interface [polypeptide binding]; other site 642492008012 conserved gate region; other site 642492008013 putative PBP binding loops; other site 642492008014 ABC-ATPase subunit interface; other site 642492008015 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492008016 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 642492008017 dimer interface [polypeptide binding]; other site 642492008018 conserved gate region; other site 642492008019 putative PBP binding loops; other site 642492008020 ABC-ATPase subunit interface; other site 642492008021 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492008022 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492008023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492008024 dimer interface [polypeptide binding]; other site 642492008025 putative CheW interface [polypeptide binding]; other site 642492008026 histidinol-phosphatase; Reviewed; Region: PRK08123 642492008027 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 642492008028 active site 642492008029 catalytic site [active] 642492008030 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 642492008031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492008032 Helix-turn-helix domains; Region: HTH; cl00088 642492008033 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 642492008034 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 642492008035 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 642492008036 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 642492008037 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 642492008038 regulatory protein interface [polypeptide binding]; other site 642492008039 active site 642492008040 regulatory phosphorylation site [posttranslational modification]; other site 642492008041 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 642492008042 Rubredoxin; Region: Rubredoxin; pfam00301 642492008043 iron binding site [ion binding]; other site 642492008044 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 642492008045 diiron binding motif [ion binding]; other site 642492008046 inner membrane transporter YjeM; Provisional; Region: PRK15238 642492008047 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 642492008048 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 642492008049 putative catalytic cysteine [active] 642492008050 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 642492008051 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 642492008052 nucleotide binding pocket [chemical binding]; other site 642492008053 K-X-D-G motif; other site 642492008054 catalytic site [active] 642492008055 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 642492008056 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 642492008057 Dimer interface [polypeptide binding]; other site 642492008058 BRCT sequence motif; other site 642492008059 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 642492008060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008061 Family description; Region: UvrD_C_2; cl15862 642492008062 Helix-turn-helix domains; Region: HTH; cl00088 642492008063 putative hydrolase; Validated; Region: PRK09248 642492008064 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492008065 Uncharacterized conserved protein [Function unknown]; Region: COG1284 642492008066 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492008067 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 642492008068 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 642492008069 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 642492008070 active site 642492008071 HIGH motif; other site 642492008072 dimer interface [polypeptide binding]; other site 642492008073 KMSKS motif; other site 642492008074 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492008075 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 642492008076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 642492008077 HTH-like domain; Region: HTH_21; pfam13276 642492008078 Integrase core domain; Region: rve; cl01316 642492008079 Integrase core domain; Region: rve_3; cl15866 642492008080 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492008081 Helix-turn-helix domains; Region: HTH; cl00088 642492008082 Helix-turn-helix domains; Region: HTH; cl00088 642492008083 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 642492008084 MatE; Region: MatE; cl10513 642492008085 MatE; Region: MatE; cl10513 642492008086 hypothetical protein; Provisional; Region: PRK06851 642492008087 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 642492008088 Walker A motif; other site 642492008089 ATP binding site [chemical binding]; other site 642492008090 Walker B motif; other site 642492008091 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 642492008092 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 642492008093 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492008094 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 642492008095 homotrimer interaction site [polypeptide binding]; other site 642492008096 zinc binding site [ion binding]; other site 642492008097 CDP-binding sites; other site 642492008098 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 642492008099 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492008100 active site 642492008101 motif I; other site 642492008102 motif II; other site 642492008103 Putative motility protein; Region: YjfB_motility; pfam14070 642492008104 Protein of unknown function DUF45; Region: DUF45; cl00636 642492008105 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 642492008106 nudix motif; other site 642492008107 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 642492008108 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 642492008109 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 642492008110 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492008111 DNA repair protein RadA; Provisional; Region: PRK11823 642492008112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008113 Walker A motif; other site 642492008114 ATP binding site [chemical binding]; other site 642492008115 Walker B motif; other site 642492008116 Clp protease ATP binding subunit; Region: clpC; CHL00095 642492008117 Clp amino terminal domain; Region: Clp_N; pfam02861 642492008118 Clp amino terminal domain; Region: Clp_N; pfam02861 642492008119 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 642492008120 Walker A motif; other site 642492008121 ATP binding site [chemical binding]; other site 642492008122 Walker B motif; other site 642492008123 arginine finger; other site 642492008124 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 642492008125 Walker A motif; other site 642492008126 ATP binding site [chemical binding]; other site 642492008127 Walker B motif; other site 642492008128 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 642492008129 Membrane transport protein; Region: Mem_trans; cl09117 642492008130 PemK-like protein; Region: PemK; cl00995 642492008131 alanine racemase; Reviewed; Region: alr; PRK00053 642492008132 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 642492008133 active site 642492008134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492008135 dimer interface [polypeptide binding]; other site 642492008136 substrate binding site [chemical binding]; other site 642492008137 catalytic residues [active] 642492008138 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 642492008139 FOG: CBS domain [General function prediction only]; Region: COG0517 642492008140 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 642492008141 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 642492008142 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 642492008143 putative substrate binding site [chemical binding]; other site 642492008144 putative ATP binding site [chemical binding]; other site 642492008145 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 642492008146 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492008147 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 642492008148 substrate binding site [chemical binding]; other site 642492008149 ATP binding site [chemical binding]; other site 642492008150 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 642492008151 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008152 Family description; Region: UvrD_C_2; cl15862 642492008153 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492008154 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492008155 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 642492008156 Fe-S cluster binding site [ion binding]; other site 642492008157 active site 642492008158 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 642492008159 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 642492008160 FeS/SAM binding site; other site 642492008161 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 642492008162 thymidylate kinase; Validated; Region: tmk; PRK00698 642492008163 TMP-binding site; other site 642492008164 ATP-binding site [chemical binding]; other site 642492008165 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 642492008166 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 642492008167 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 642492008168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492008169 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492008170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008171 Walker A/P-loop; other site 642492008172 ATP binding site [chemical binding]; other site 642492008173 Q-loop/lid; other site 642492008174 ABC transporter signature motif; other site 642492008175 Walker B; other site 642492008176 D-loop; other site 642492008177 H-loop/switch region; other site 642492008178 ABC transporter; Region: ABC_tran_2; pfam12848 642492008179 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492008180 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 642492008181 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 642492008182 Predicted transcriptional regulator [Transcription]; Region: COG2378 642492008183 Helix-turn-helix domains; Region: HTH; cl00088 642492008184 WYL domain; Region: WYL; cl14852 642492008185 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 642492008186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492008187 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492008188 multifunctional aminopeptidase A; Provisional; Region: PRK00913 642492008189 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 642492008190 interface (dimer of trimers) [polypeptide binding]; other site 642492008191 Substrate-binding/catalytic site; other site 642492008192 Zn-binding sites [ion binding]; other site 642492008193 Cupin domain; Region: Cupin_2; cl09118 642492008194 Phage Tail Collar Domain; Region: Collar; pfam07484 642492008195 Cache domain; Region: Cache_1; pfam02743 642492008196 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492008197 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492008198 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492008199 dimer interface [polypeptide binding]; other site 642492008200 putative CheW interface [polypeptide binding]; other site 642492008201 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 642492008202 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 642492008203 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 642492008204 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 642492008205 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 642492008206 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492008207 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492008208 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 642492008209 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 642492008210 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 642492008211 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 642492008212 carboxyltransferase (CT) interaction site; other site 642492008213 biotinylation site [posttranslational modification]; other site 642492008214 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 642492008215 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 642492008216 dimer interface [polypeptide binding]; other site 642492008217 active site 642492008218 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 642492008219 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 642492008220 NAD(P) binding site [chemical binding]; other site 642492008221 homotetramer interface [polypeptide binding]; other site 642492008222 homodimer interface [polypeptide binding]; other site 642492008223 active site 642492008224 Acyl transferase domain; Region: Acyl_transf_1; cl08282 642492008225 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 642492008226 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 642492008227 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 642492008228 FMN binding site [chemical binding]; other site 642492008229 substrate binding site [chemical binding]; other site 642492008230 putative catalytic residue [active] 642492008231 Phosphopantetheine attachment site; Region: PP-binding; cl09936 642492008232 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 642492008233 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 642492008234 dimer interface [polypeptide binding]; other site 642492008235 active site 642492008236 CoA binding pocket [chemical binding]; other site 642492008237 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492008238 Helix-turn-helix domains; Region: HTH; cl00088 642492008239 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 642492008240 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 642492008241 FMN binding site [chemical binding]; other site 642492008242 substrate binding site [chemical binding]; other site 642492008243 putative catalytic residue [active] 642492008244 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 642492008245 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 642492008246 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 642492008247 FeS/SAM binding site; other site 642492008248 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 642492008249 Isochorismatase family; Region: Isochorismatase; pfam00857 642492008250 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 642492008251 catalytic triad [active] 642492008252 conserved cis-peptide bond; other site 642492008253 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492008254 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 642492008255 active site 642492008256 phosphorylation site [posttranslational modification] 642492008257 intermolecular recognition site; other site 642492008258 dimerization interface [polypeptide binding]; other site 642492008259 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 642492008260 DNA binding site [nucleotide binding] 642492008261 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 642492008262 dimer interface [polypeptide binding]; other site 642492008263 phosphorylation site [posttranslational modification] 642492008264 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 642492008265 ATP binding site [chemical binding]; other site 642492008266 Mg2+ binding site [ion binding]; other site 642492008267 G-X-G motif; other site 642492008268 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 642492008269 dimer interface [polypeptide binding]; other site 642492008270 phosphorylation site [posttranslational modification] 642492008271 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 642492008272 ATP binding site [chemical binding]; other site 642492008273 Mg2+ binding site [ion binding]; other site 642492008274 G-X-G motif; other site 642492008275 DHHW protein; Region: DHHW; pfam14286 642492008276 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 642492008277 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492008278 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 642492008279 LytTr DNA-binding domain; Region: LytTR; cl04498 642492008280 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492008281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008282 Walker A/P-loop; other site 642492008283 ATP binding site [chemical binding]; other site 642492008284 Q-loop/lid; other site 642492008285 ABC transporter signature motif; other site 642492008286 Walker B; other site 642492008287 D-loop; other site 642492008288 H-loop/switch region; other site 642492008289 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 642492008290 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 642492008291 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 642492008292 putative oligomer interface [polypeptide binding]; other site 642492008293 putative active site [active] 642492008294 metal binding site [ion binding]; metal-binding site 642492008295 Predicted acetyltransferase [General function prediction only]; Region: COG3153 642492008296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008297 Coenzyme A binding pocket [chemical binding]; other site 642492008298 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 642492008299 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492008300 CAAX protease self-immunity; Region: Abi; cl00558 642492008301 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 642492008302 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 642492008303 putative substrate translocation pore; other site 642492008304 Major Facilitator Superfamily; Region: MFS_1; pfam07690 642492008305 Sulfatase; Region: Sulfatase; cl10460 642492008306 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492008307 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492008308 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008309 Walker A/P-loop; other site 642492008310 ATP binding site [chemical binding]; other site 642492008311 Q-loop/lid; other site 642492008312 ABC transporter signature motif; other site 642492008313 Walker B; other site 642492008314 D-loop; other site 642492008315 H-loop/switch region; other site 642492008316 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492008317 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492008318 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 642492008319 Walker A/P-loop; other site 642492008320 ATP binding site [chemical binding]; other site 642492008321 Q-loop/lid; other site 642492008322 ABC transporter signature motif; other site 642492008323 Walker B; other site 642492008324 D-loop; other site 642492008325 H-loop/switch region; other site 642492008326 Protein of unknown function (DUF419); Region: DUF419; cl15265 642492008327 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 642492008328 putative FMN binding site [chemical binding]; other site 642492008329 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492008330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008331 Coenzyme A binding pocket [chemical binding]; other site 642492008332 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 642492008333 putative dimer interface [polypeptide binding]; other site 642492008334 catalytic triad [active] 642492008335 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492008336 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492008337 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 642492008338 Catalytic domain of Protein Kinases; Region: PKc; cd00180 642492008339 active site 642492008340 ATP binding site [chemical binding]; other site 642492008341 substrate binding site [chemical binding]; other site 642492008342 activation loop (A-loop); other site 642492008343 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 642492008344 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 642492008345 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 642492008346 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492008347 catalytic residue [active] 642492008348 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492008349 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 642492008350 dimerization interface [polypeptide binding]; other site 642492008351 Protein of unknown function (DUF328); Region: DUF328; cl01143 642492008352 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 642492008353 catalytic triad [active] 642492008354 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 642492008355 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492008356 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 642492008357 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 642492008358 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 642492008359 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492008360 VanW like protein; Region: VanW; pfam04294 642492008361 G5 domain; Region: G5; pfam07501 642492008362 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 642492008363 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 642492008364 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 642492008365 putative metal binding residues [ion binding]; other site 642492008366 signature motif; other site 642492008367 dimer interface [polypeptide binding]; other site 642492008368 polyP binding site; other site 642492008369 active site 642492008370 substrate binding site [chemical binding]; other site 642492008371 acceptor-phosphate pocket; other site 642492008372 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 642492008373 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 642492008374 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492008375 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 642492008376 DNA-binding site [nucleotide binding]; DNA binding site 642492008377 RNA-binding motif; other site 642492008378 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 642492008379 catalytic triad [active] 642492008380 active site 642492008381 oxyanion hole [active] 642492008382 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 642492008383 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 642492008384 motif II; other site 642492008385 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 642492008386 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 642492008387 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 642492008388 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 642492008389 FeS/SAM binding site; other site 642492008390 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 642492008391 Predicted membrane protein [Function unknown]; Region: COG1971 642492008392 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 642492008393 Helix-turn-helix domains; Region: HTH; cl00088 642492008394 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492008395 MatE; Region: MatE; cl10513 642492008396 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 642492008397 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 642492008398 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 642492008399 dimer interface [polypeptide binding]; other site 642492008400 putative radical transfer pathway; other site 642492008401 diiron center [ion binding]; other site 642492008402 tyrosyl radical; other site 642492008403 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 642492008404 ATP cone domain; Region: ATP-cone; pfam03477 642492008405 Class I ribonucleotide reductase; Region: RNR_I; cd01679 642492008406 active site 642492008407 dimer interface [polypeptide binding]; other site 642492008408 catalytic residues [active] 642492008409 effector binding site; other site 642492008410 R2 peptide binding site; other site 642492008411 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 642492008412 catalytic motif [active] 642492008413 Zn binding site [ion binding]; other site 642492008414 glycogen synthase; Provisional; Region: glgA; PRK00654 642492008415 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 642492008416 ADP-binding pocket [chemical binding]; other site 642492008417 homodimer interface [polypeptide binding]; other site 642492008418 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492008419 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492008420 Walker A/P-loop; other site 642492008421 ATP binding site [chemical binding]; other site 642492008422 Q-loop/lid; other site 642492008423 ABC transporter signature motif; other site 642492008424 Walker B; other site 642492008425 D-loop; other site 642492008426 H-loop/switch region; other site 642492008427 FtsX-like permease family; Region: FtsX; cl15850 642492008428 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 642492008429 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 642492008430 active site 642492008431 phosphorylation site [posttranslational modification] 642492008432 intermolecular recognition site; other site 642492008433 dimerization interface [polypeptide binding]; other site 642492008434 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 642492008435 DNA binding residues [nucleotide binding] 642492008436 dimerization interface [polypeptide binding]; other site 642492008437 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 642492008438 Histidine kinase; Region: HisKA_3; pfam07730 642492008439 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 642492008440 ATP binding site [chemical binding]; other site 642492008441 Mg2+ binding site [ion binding]; other site 642492008442 G-X-G motif; other site 642492008443 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 642492008444 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 642492008445 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 642492008446 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492008447 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492008448 Walker A/P-loop; other site 642492008449 ATP binding site [chemical binding]; other site 642492008450 Q-loop/lid; other site 642492008451 ABC transporter signature motif; other site 642492008452 Walker B; other site 642492008453 D-loop; other site 642492008454 H-loop/switch region; other site 642492008455 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492008456 FtsX-like permease family; Region: FtsX; cl15850 642492008457 FtsX-like permease family; Region: FtsX; cl15850 642492008458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492008459 metal binding site [ion binding]; metal-binding site 642492008460 active site 642492008461 I-site; other site 642492008462 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 642492008463 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492008464 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 642492008465 dimer interface [polypeptide binding]; other site 642492008466 substrate binding site [chemical binding]; other site 642492008467 ATP binding site [chemical binding]; other site 642492008468 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 642492008469 thiamine phosphate binding site [chemical binding]; other site 642492008470 active site 642492008471 pyrophosphate binding site [ion binding]; other site 642492008472 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 642492008473 substrate binding site [chemical binding]; other site 642492008474 multimerization interface [polypeptide binding]; other site 642492008475 ATP binding site [chemical binding]; other site 642492008476 Beta propeller domain; Region: Beta_propel; pfam09826 642492008477 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 642492008478 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492008479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492008480 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 642492008481 Bacterial Ig-like domain; Region: Big_5; cl01012 642492008482 S-layer homology domain; Region: SLH; pfam00395 642492008483 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 642492008484 S-layer homology domain; Region: SLH; pfam00395 642492008485 S-layer homology domain; Region: SLH; pfam00395 642492008486 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; cl09944 642492008487 active site 642492008488 intermolecular recognition site; other site 642492008489 dimerization interface [polypeptide binding]; other site 642492008490 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 642492008491 Response regulator receiver domain; Region: Response_reg; pfam00072 642492008492 active site 642492008493 phosphorylation site [posttranslational modification] 642492008494 intermolecular recognition site; other site 642492008495 dimerization interface [polypeptide binding]; other site 642492008496 LytTr DNA-binding domain; Region: LytTR; cl04498 642492008497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492008498 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 642492008499 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 642492008500 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 642492008501 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 642492008502 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492008503 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 642492008504 putative catalytic residues [active] 642492008505 catalytic nucleophile [active] 642492008506 Recombinase; Region: Recombinase; pfam07508 642492008507 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 642492008508 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 642492008509 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 642492008510 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 642492008511 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 642492008512 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 642492008513 catalytic residues [active] 642492008514 Helix-turn-helix domains; Region: HTH; cl00088 642492008515 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 642492008516 peptidase T; Region: peptidase-T; TIGR01882 642492008517 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 642492008518 metal binding site [ion binding]; metal-binding site 642492008519 dimer interface [polypeptide binding]; other site 642492008520 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 642492008521 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 642492008522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008523 Family description; Region: UvrD_C_2; cl15862 642492008524 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 642492008525 catalytic triad [active] 642492008526 active site 642492008527 oxyanion hole [active] 642492008528 Rubrerythrin [Energy production and conversion]; Region: COG1592 642492008529 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 642492008530 binuclear metal center [ion binding]; other site 642492008531 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 642492008532 iron binding site [ion binding]; other site 642492008533 Mn2+-dependent serine/threonine protein kinase [Signal transduction mechanisms]; Region: COG3642 642492008534 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492008535 MatE; Region: MatE; cl10513 642492008536 MatE; Region: MatE; cl10513 642492008537 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492008538 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492008539 DNA binding site [nucleotide binding] 642492008540 domain linker motif; other site 642492008541 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 642492008542 ligand binding site [chemical binding]; other site 642492008543 dimerization interface [polypeptide binding]; other site 642492008544 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 642492008545 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 642492008546 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492008547 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 642492008548 substrate binding site [chemical binding]; other site 642492008549 Phospholipid methyltransferase; Region: PEMT; cl00763 642492008550 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 642492008551 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 642492008552 DNA binding residues [nucleotide binding] 642492008553 dimerization interface [polypeptide binding]; other site 642492008554 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 642492008555 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 642492008556 active site 642492008557 phosphorylation site [posttranslational modification] 642492008558 intermolecular recognition site; other site 642492008559 dimerization interface [polypeptide binding]; other site 642492008560 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 642492008561 dimerization interface [polypeptide binding]; other site 642492008562 DNA binding residues [nucleotide binding] 642492008563 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 642492008564 Histidine kinase; Region: HisKA_3; pfam07730 642492008565 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 642492008566 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492008567 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008568 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 642492008569 Walker A/P-loop; other site 642492008570 ATP binding site [chemical binding]; other site 642492008571 Q-loop/lid; other site 642492008572 ABC transporter signature motif; other site 642492008573 Walker B; other site 642492008574 D-loop; other site 642492008575 H-loop/switch region; other site 642492008576 Erythromycin esterase; Region: Erythro_esteras; pfam05139 642492008577 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 642492008578 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 642492008579 DNA binding residues [nucleotide binding] 642492008580 putative dimer interface [polypeptide binding]; other site 642492008581 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492008582 Cupin domain; Region: Cupin_2; cl09118 642492008583 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 642492008584 active site 642492008585 metal binding site [ion binding]; metal-binding site 642492008586 homotetramer interface [polypeptide binding]; other site 642492008587 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492008588 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492008589 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492008590 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 642492008591 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492008592 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 642492008593 substrate binding pocket [chemical binding]; other site 642492008594 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 642492008595 putative deacylase active site [active] 642492008596 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 642492008597 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 642492008598 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492008599 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 642492008600 putative substrate translocation pore; other site 642492008601 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492008602 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492008603 Walker A/P-loop; other site 642492008604 ATP binding site [chemical binding]; other site 642492008605 Q-loop/lid; other site 642492008606 ABC transporter signature motif; other site 642492008607 Walker B; other site 642492008608 D-loop; other site 642492008609 H-loop/switch region; other site 642492008610 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 642492008611 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 642492008612 ABC-ATPase subunit interface; other site 642492008613 dimer interface [polypeptide binding]; other site 642492008614 putative PBP binding regions; other site 642492008615 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 642492008616 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 642492008617 ABC-ATPase subunit interface; other site 642492008618 dimer interface [polypeptide binding]; other site 642492008619 putative PBP binding regions; other site 642492008620 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 642492008621 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 642492008622 putative ligand binding residues [chemical binding]; other site 642492008623 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 642492008624 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492008625 active site 642492008626 motif I; other site 642492008627 motif II; other site 642492008628 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492008629 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 642492008630 Rubredoxin; Region: Rubredoxin; pfam00301 642492008631 iron binding site [ion binding]; other site 642492008632 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 642492008633 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492008634 active site 642492008635 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 642492008636 xanthine permease; Region: pbuX; TIGR03173 642492008637 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 642492008638 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 642492008639 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 642492008640 dimer interface [polypeptide binding]; other site 642492008641 active site 642492008642 metal binding site [ion binding]; metal-binding site 642492008643 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492008644 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 642492008645 active site 642492008646 phosphorylation site [posttranslational modification] 642492008647 intermolecular recognition site; other site 642492008648 dimerization interface [polypeptide binding]; other site 642492008649 LytTr DNA-binding domain; Region: LytTR; cl04498 642492008650 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 642492008651 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 642492008652 Histidine kinase; Region: His_kinase; pfam06580 642492008653 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 642492008654 ATP binding site [chemical binding]; other site 642492008655 Mg2+ binding site [ion binding]; other site 642492008656 G-X-G motif; other site 642492008657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492008658 Helix-turn-helix domains; Region: HTH; cl00088 642492008659 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 642492008660 dimerization interface [polypeptide binding]; other site 642492008661 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 642492008662 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 642492008663 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 642492008664 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008665 Coenzyme A binding pocket [chemical binding]; other site 642492008666 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492008667 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492008668 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 642492008669 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 642492008670 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 642492008671 putative NADH binding site [chemical binding]; other site 642492008672 putative active site [active] 642492008673 nudix motif; other site 642492008674 putative metal binding site [ion binding]; other site 642492008675 EamA-like transporter family; Region: EamA; cl01037 642492008676 EamA-like transporter family; Region: EamA; cl01037 642492008677 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 642492008678 Putative carbohydrate binding domain; Region: CBM_X; cl05621 642492008679 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 642492008680 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 642492008681 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 642492008682 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 642492008683 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 642492008684 S-adenosylmethionine binding site [chemical binding]; other site 642492008685 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 642492008686 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 642492008687 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 642492008688 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492008689 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 642492008690 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 642492008691 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492008692 active site 642492008693 metal binding site [ion binding]; metal-binding site 642492008694 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 642492008695 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 642492008696 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 642492008697 dimer interface [polypeptide binding]; other site 642492008698 conserved gate region; other site 642492008699 ABC-ATPase subunit interface; other site 642492008700 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 642492008701 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 642492008702 dimer interface [polypeptide binding]; other site 642492008703 conserved gate region; other site 642492008704 putative PBP binding loops; other site 642492008705 ABC-ATPase subunit interface; other site 642492008706 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 642492008707 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 642492008708 Walker A/P-loop; other site 642492008709 ATP binding site [chemical binding]; other site 642492008710 Q-loop/lid; other site 642492008711 ABC transporter signature motif; other site 642492008712 Walker B; other site 642492008713 D-loop; other site 642492008714 H-loop/switch region; other site 642492008715 NMT1-like family; Region: NMT1_2; cl15260 642492008716 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 642492008717 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 642492008718 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492008719 DNA binding site [nucleotide binding] 642492008720 domain linker motif; other site 642492008721 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 642492008722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008723 AAA domain; Region: AAA_18; pfam13238 642492008724 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492008725 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008726 Coenzyme A binding pocket [chemical binding]; other site 642492008727 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492008728 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 642492008729 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 642492008730 ABC-ATPase subunit interface; other site 642492008731 dimer interface [polypeptide binding]; other site 642492008732 putative PBP binding regions; other site 642492008733 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 642492008734 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 642492008735 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 642492008736 intersubunit interface [polypeptide binding]; other site 642492008737 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 642492008738 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 642492008739 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 642492008740 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 642492008741 G1 box; other site 642492008742 GTP/Mg2+ binding site [chemical binding]; other site 642492008743 Switch I region; other site 642492008744 G2 box; other site 642492008745 G3 box; other site 642492008746 Switch II region; other site 642492008747 G4 box; other site 642492008748 G5 box; other site 642492008749 Nucleoside recognition; Region: Gate; cl00486 642492008750 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 642492008751 Nucleoside recognition; Region: Gate; cl00486 642492008752 FeoA domain; Region: FeoA; cl00838 642492008753 FeoA domain; Region: FeoA; cl00838 642492008754 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492008755 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492008756 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 642492008757 Walker A/P-loop; other site 642492008758 ATP binding site [chemical binding]; other site 642492008759 Q-loop/lid; other site 642492008760 ABC transporter signature motif; other site 642492008761 Walker B; other site 642492008762 D-loop; other site 642492008763 H-loop/switch region; other site 642492008764 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 642492008765 dimer interface [polypeptide binding]; other site 642492008766 phosphorylation site [posttranslational modification] 642492008767 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 642492008768 ATP binding site [chemical binding]; other site 642492008769 Mg2+ binding site [ion binding]; other site 642492008770 G-X-G motif; other site 642492008771 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492008772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008773 Walker A/P-loop; other site 642492008774 ATP binding site [chemical binding]; other site 642492008775 Q-loop/lid; other site 642492008776 ABC transporter signature motif; other site 642492008777 Walker B; other site 642492008778 D-loop; other site 642492008779 H-loop/switch region; other site 642492008780 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492008781 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 642492008782 active site 642492008783 phosphorylation site [posttranslational modification] 642492008784 intermolecular recognition site; other site 642492008785 dimerization interface [polypeptide binding]; other site 642492008786 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 642492008787 DNA binding site [nucleotide binding] 642492008788 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 642492008789 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 642492008790 catalytic residue [active] 642492008791 putative FPP diphosphate binding site; other site 642492008792 putative FPP binding hydrophobic cleft; other site 642492008793 dimer interface [polypeptide binding]; other site 642492008794 putative IPP diphosphate binding site; other site 642492008795 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492008796 MatE; Region: MatE; cl10513 642492008797 MatE; Region: MatE; cl10513 642492008798 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492008799 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 642492008800 Amidohydrolase; Region: Amidohydro_4; pfam13147 642492008801 active site 642492008802 dimer interface [polypeptide binding]; other site 642492008803 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 642492008804 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492008805 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492008806 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492008807 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 642492008808 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 642492008809 Rhomboid family; Region: Rhomboid; cl11446 642492008810 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 642492008811 binding surface 642492008812 TPR motif; other site 642492008813 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 642492008814 AMP-binding enzyme; Region: AMP-binding; cl15778 642492008815 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 642492008816 Helix-turn-helix domains; Region: HTH; cl00088 642492008817 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 642492008818 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 642492008819 trimerization site [polypeptide binding]; other site 642492008820 active site 642492008821 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 642492008822 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 642492008823 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492008824 catalytic residue [active] 642492008825 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 642492008826 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 642492008827 FeS assembly protein SufB; Region: sufB; TIGR01980 642492008828 FeS assembly ATPase SufC; Region: sufC; TIGR01978 642492008829 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 642492008830 Walker A/P-loop; other site 642492008831 ATP binding site [chemical binding]; other site 642492008832 Q-loop/lid; other site 642492008833 ABC transporter signature motif; other site 642492008834 Walker B; other site 642492008835 D-loop; other site 642492008836 H-loop/switch region; other site 642492008837 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 642492008838 classical (c) SDRs; Region: SDR_c; cd05233 642492008839 NAD(P) binding site [chemical binding]; other site 642492008840 active site 642492008841 Cupin domain; Region: Cupin_2; cl09118 642492008842 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492008843 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492008844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492008845 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492008846 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492008847 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008848 Coenzyme A binding pocket [chemical binding]; other site 642492008849 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 642492008850 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492008851 Helix-turn-helix domains; Region: HTH; cl00088 642492008852 Transposase domain (DUF772); Region: DUF772; cl15789 642492008853 Transposase domain (DUF772); Region: DUF772; cl15789 642492008854 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 642492008855 dimer interface [polypeptide binding]; other site 642492008856 phosphorylation site [posttranslational modification] 642492008857 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 642492008858 ATP binding site [chemical binding]; other site 642492008859 Mg2+ binding site [ion binding]; other site 642492008860 G-X-G motif; other site 642492008861 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492008862 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 642492008863 active site 642492008864 phosphorylation site [posttranslational modification] 642492008865 intermolecular recognition site; other site 642492008866 dimerization interface [polypeptide binding]; other site 642492008867 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 642492008868 DNA binding site [nucleotide binding] 642492008869 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 642492008870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492008871 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 642492008872 Ligand Binding Site [chemical binding]; other site 642492008873 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492008874 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 642492008875 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492008876 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 642492008877 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 642492008878 putative ATP binding site [chemical binding]; other site 642492008879 putative substrate interface [chemical binding]; other site 642492008880 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 642492008881 ArsC family; Region: ArsC; pfam03960 642492008882 catalytic residue [active] 642492008883 Protein of unknown function DUF89; Region: DUF89; cl15397 642492008884 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492008885 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492008886 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 642492008887 dimer interface [polypeptide binding]; other site 642492008888 conserved gate region; other site 642492008889 putative PBP binding loops; other site 642492008890 ABC-ATPase subunit interface; other site 642492008891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492008892 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492008893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 642492008894 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 642492008895 AAA domain; Region: AAA_21; pfam13304 642492008896 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 642492008897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008898 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 642492008899 Walker A/P-loop; other site 642492008900 ATP binding site [chemical binding]; other site 642492008901 Q-loop/lid; other site 642492008902 ABC transporter signature motif; other site 642492008903 Walker B; other site 642492008904 D-loop; other site 642492008905 H-loop/switch region; other site 642492008906 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 642492008907 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 642492008908 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492008909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492008910 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492008911 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492008912 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492008913 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492008914 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492008915 Helix-turn-helix domains; Region: HTH; cl00088 642492008916 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 642492008917 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492008918 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492008919 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 642492008920 MFS/sugar transport protein; Region: MFS_2; pfam13347 642492008921 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 642492008922 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 642492008923 GMP synthase; Reviewed; Region: guaA; PRK00074 642492008924 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 642492008925 AMP/PPi binding site [chemical binding]; other site 642492008926 candidate oxyanion hole; other site 642492008927 catalytic triad [active] 642492008928 potential glutamine specificity residues [chemical binding]; other site 642492008929 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 642492008930 ATP Binding subdomain [chemical binding]; other site 642492008931 Ligand Binding sites [chemical binding]; other site 642492008932 Dimerization subdomain; other site 642492008933 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 642492008934 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 642492008935 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 642492008936 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 642492008937 active site 642492008938 Bacitracin resistance protein BacA; Region: BacA; cl00858 642492008939 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 642492008940 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 642492008941 ring oligomerisation interface [polypeptide binding]; other site 642492008942 ATP/Mg binding site [chemical binding]; other site 642492008943 stacking interactions; other site 642492008944 hinge regions; other site 642492008945 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 642492008946 oligomerisation interface [polypeptide binding]; other site 642492008947 mobile loop; other site 642492008948 roof hairpin; other site 642492008949 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 642492008950 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 642492008951 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 642492008952 minor groove reading motif; other site 642492008953 helix-hairpin-helix signature motif; other site 642492008954 substrate binding pocket [chemical binding]; other site 642492008955 active site 642492008956 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 642492008957 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 642492008958 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492008959 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 642492008960 substrate binding site; other site 642492008961 dimer interface; other site 642492008962 L-type amino acid transporter; Region: 2A0308; TIGR00911 642492008963 VanZ like family; Region: VanZ; cl01971 642492008964 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 642492008965 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 642492008966 putative active site [active] 642492008967 UGMP family protein; Validated; Region: PRK09604 642492008968 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 642492008969 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 642492008970 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 642492008971 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492008972 FeoA domain; Region: FeoA; cl00838 642492008973 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 642492008974 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 642492008975 G1 box; other site 642492008976 GTP/Mg2+ binding site [chemical binding]; other site 642492008977 Switch I region; other site 642492008978 G2 box; other site 642492008979 G3 box; other site 642492008980 Switch II region; other site 642492008981 G4 box; other site 642492008982 G5 box; other site 642492008983 Nucleoside recognition; Region: Gate; cl00486 642492008984 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 642492008985 Nucleoside recognition; Region: Gate; cl00486 642492008986 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 642492008987 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 642492008988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492008989 Walker A/P-loop; other site 642492008990 ATP binding site [chemical binding]; other site 642492008991 Q-loop/lid; other site 642492008992 ABC transporter signature motif; other site 642492008993 Walker B; other site 642492008994 D-loop; other site 642492008995 H-loop/switch region; other site 642492008996 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492008997 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 642492008998 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 642492008999 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492009000 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492009001 S-locus glycoprotein family; Region: S_locus_glycop; pfam00954 642492009002 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 642492009003 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 642492009004 active site 642492009005 substrate binding site [chemical binding]; other site 642492009006 metal binding site [ion binding]; metal-binding site 642492009007 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 642492009008 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 642492009009 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 642492009010 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492009011 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009012 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009013 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492009014 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009015 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009016 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 642492009017 Interdomain contacts; other site 642492009018 Cytokine receptor motif; other site 642492009019 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 642492009020 chitin/cellulose binding site [chemical binding]; other site 642492009021 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 642492009022 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 642492009023 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 642492009024 active site 642492009025 catalytic residues [active] 642492009026 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 642492009027 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 642492009028 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492009029 active site 642492009030 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 642492009031 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 642492009032 dimerization interface [polypeptide binding]; other site 642492009033 putative active cleft [active] 642492009034 Domain of unknown function (DUF377); Region: DUF377; pfam04041 642492009035 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492009036 active site 642492009037 Cupin domain; Region: Cupin_2; cl09118 642492009038 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492009039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492009040 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492009041 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492009042 DNA binding site [nucleotide binding] 642492009043 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 642492009044 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 642492009045 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 642492009046 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 642492009047 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; cd00229 642492009048 active site 642492009049 catalytic triad [active] 642492009050 oxyanion hole [active] 642492009051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 642492009052 YbbR-like protein; Region: YbbR; pfam07949 642492009053 Uncharacterized conserved protein [Function unknown]; Region: COG1624 642492009054 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 642492009055 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 642492009056 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 642492009057 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 642492009058 dimer interface [polypeptide binding]; other site 642492009059 putative anticodon binding site; other site 642492009060 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 642492009061 motif 1; other site 642492009062 active site 642492009063 motif 2; other site 642492009064 motif 3; other site 642492009065 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 642492009066 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 642492009067 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 642492009068 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 642492009069 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 642492009070 FMN binding site [chemical binding]; other site 642492009071 active site 642492009072 catalytic residues [active] 642492009073 substrate binding site [chemical binding]; other site 642492009074 Type III pantothenate kinase; Region: Pan_kinase; cl09130 642492009075 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 642492009076 Flavoprotein; Region: Flavoprotein; cl08021 642492009077 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 642492009078 Predicted membrane protein [Function unknown]; Region: COG4684 642492009079 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492009080 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 642492009081 Helix-turn-helix domains; Region: HTH; cl00088 642492009082 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 642492009083 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 642492009084 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 642492009085 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 642492009086 Walker A motif; other site 642492009087 ATP binding site [chemical binding]; other site 642492009088 Walker B motif; other site 642492009089 arginine finger; other site 642492009090 Peptidase family M41; Region: Peptidase_M41; pfam01434 642492009091 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492009092 active site 642492009093 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 642492009094 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 642492009095 Ligand Binding Site [chemical binding]; other site 642492009096 B3/4 domain; Region: B3_4; cl11458 642492009097 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 642492009098 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 642492009099 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 642492009100 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 642492009101 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 642492009102 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492009103 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 642492009104 RHS Repeat; Region: RHS_repeat; cl11982 642492009105 RHS Repeat; Region: RHS_repeat; cl11982 642492009106 RHS Repeat; Region: RHS_repeat; cl11982 642492009107 RHS Repeat; Region: RHS_repeat; cl11982 642492009108 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 642492009109 RHS Repeat; Region: RHS_repeat; cl11982 642492009110 RHS Repeat; Region: RHS_repeat; cl11982 642492009111 RHS Repeat; Region: RHS_repeat; cl11982 642492009112 RHS Repeat; Region: RHS_repeat; cl11982 642492009113 RHS Repeat; Region: RHS_repeat; cl11982 642492009114 RHS Repeat; Region: RHS_repeat; cl11982 642492009115 RHS Repeat; Region: RHS_repeat; cl11982 642492009116 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 642492009117 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492009118 Helix-turn-helix domains; Region: HTH; cl00088 642492009119 putative transposase OrfB; Reviewed; Region: PHA02517 642492009120 HTH-like domain; Region: HTH_21; pfam13276 642492009121 Integrase core domain; Region: rve; cl01316 642492009122 Integrase core domain; Region: rve_3; cl15866 642492009123 RHS Repeat; Region: RHS_repeat; cl11982 642492009124 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009125 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 642492009126 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 642492009127 RHS Repeat; Region: RHS_repeat; cl11982 642492009128 RHS Repeat; Region: RHS_repeat; cl11982 642492009129 RHS Repeat; Region: RHS_repeat; cl11982 642492009130 RHS Repeat; Region: RHS_repeat; cl11982 642492009131 RHS Repeat; Region: RHS_repeat; cl11982 642492009132 RHS Repeat; Region: RHS_repeat; cl11982 642492009133 RHS Repeat; Region: RHS_repeat; cl11982 642492009134 RHS Repeat; Region: RHS_repeat; cl11982 642492009135 RHS Repeat; Region: RHS_repeat; cl11982 642492009136 RHS Repeat; Region: RHS_repeat; cl11982 642492009137 RHS Repeat; Region: RHS_repeat; cl11982 642492009138 RHS Repeat; Region: RHS_repeat; cl11982 642492009139 RHS Repeat; Region: RHS_repeat; cl11982 642492009140 RHS Repeat; Region: RHS_repeat; cl11982 642492009141 RHS Repeat; Region: RHS_repeat; cl11982 642492009142 RHS Repeat; Region: RHS_repeat; cl11982 642492009143 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 642492009144 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 642492009145 RHS Repeat; Region: RHS_repeat; cl11982 642492009146 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009147 stage II sporulation protein E; Region: spore_II_E; TIGR02865 642492009148 Protein of unknown function (DUF2458); Region: DUF2458; pfam10454 642492009149 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 642492009150 Predicted membrane protein [Function unknown]; Region: COG4129 642492009151 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 642492009152 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 642492009153 Domain of unknown function (DUF377); Region: DUF377; pfam04041 642492009154 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492009155 active site 642492009156 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492009157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492009158 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 642492009159 dimer interface [polypeptide binding]; other site 642492009160 conserved gate region; other site 642492009161 putative PBP binding loops; other site 642492009162 ABC-ATPase subunit interface; other site 642492009163 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492009164 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492009165 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 642492009166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009167 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 642492009168 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 642492009169 nucleotide binding region [chemical binding]; other site 642492009170 ATP-binding site [chemical binding]; other site 642492009171 SEC-C motif; Region: SEC-C; pfam02810 642492009172 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 642492009173 30S subunit binding site; other site 642492009174 QueT transporter; Region: QueT; cl01932 642492009175 EamA-like transporter family; Region: EamA; cl01037 642492009176 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 642492009177 EamA-like transporter family; Region: EamA; cl01037 642492009178 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492009179 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492009180 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492009181 dimer interface [polypeptide binding]; other site 642492009182 putative CheW interface [polypeptide binding]; other site 642492009183 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492009184 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 642492009185 Cellulose binding domain; Region: CBM_3; cl03026 642492009186 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 642492009187 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 642492009188 homotrimer interface [polypeptide binding]; other site 642492009189 Walker A motif; other site 642492009190 GTP binding site [chemical binding]; other site 642492009191 Walker B motif; other site 642492009192 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 642492009193 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 642492009194 putative dimer interface [polypeptide binding]; other site 642492009195 active site pocket [active] 642492009196 putative cataytic base [active] 642492009197 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 642492009198 active site clefts [active] 642492009199 zinc binding site [ion binding]; other site 642492009200 dimer interface [polypeptide binding]; other site 642492009201 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009202 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 642492009203 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 642492009204 active site 642492009205 Cysteine-rich small domain; Region: zf-like; cl00946 642492009206 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 642492009207 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 642492009208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492009209 homodimer interface [polypeptide binding]; other site 642492009210 catalytic residue [active] 642492009211 CobD/Cbib protein; Region: CobD_Cbib; cl00561 642492009212 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 642492009213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009214 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 642492009215 catalytic triad [active] 642492009216 cobyric acid synthase; Provisional; Region: PRK00784 642492009217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009219 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 642492009220 catalytic triad [active] 642492009221 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 642492009222 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492009223 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492009224 Walker A/P-loop; other site 642492009225 ATP binding site [chemical binding]; other site 642492009226 Q-loop/lid; other site 642492009227 ABC transporter signature motif; other site 642492009228 Walker B; other site 642492009229 D-loop; other site 642492009230 H-loop/switch region; other site 642492009231 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492009232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492009233 DNA-binding site [nucleotide binding]; DNA binding site 642492009234 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 642492009235 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 bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 642492009236 putative active site [active] 642492009237 Cache domain; Region: Cache_1; pfam02743 642492009238 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492009239 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 642492009240 dimerization interface [polypeptide binding]; other site 642492009241 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 642492009242 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 642492009243 PhnA protein; Region: PhnA; pfam03831 642492009244 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 642492009245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492009246 aspartate aminotransferase; Provisional; Region: PRK06836 642492009247 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 642492009248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492009249 homodimer interface [polypeptide binding]; other site 642492009250 catalytic residue [active] 642492009251 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 642492009252 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492009253 active site 642492009254 metal binding site [ion binding]; metal-binding site 642492009255 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 642492009256 active site residue [active] 642492009257 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 642492009258 active site residue [active] 642492009259 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009260 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492009261 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 642492009262 Walker A/P-loop; other site 642492009263 ATP binding site [chemical binding]; other site 642492009264 Q-loop/lid; other site 642492009265 ABC transporter signature motif; other site 642492009266 Walker B; other site 642492009267 D-loop; other site 642492009268 H-loop/switch region; other site 642492009269 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009270 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492009271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009272 Walker A/P-loop; other site 642492009273 ATP binding site [chemical binding]; other site 642492009274 Q-loop/lid; other site 642492009275 ABC transporter signature motif; other site 642492009276 Walker B; other site 642492009277 D-loop; other site 642492009278 H-loop/switch region; other site 642492009279 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 642492009280 FMN binding site [chemical binding]; other site 642492009281 dimer interface [polypeptide binding]; other site 642492009282 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492009283 Helix-turn-helix domains; Region: HTH; cl00088 642492009284 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009285 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492009286 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 642492009287 Walker A/P-loop; other site 642492009288 ATP binding site [chemical binding]; other site 642492009289 Q-loop/lid; other site 642492009290 ABC transporter signature motif; other site 642492009291 Walker B; other site 642492009292 D-loop; other site 642492009293 H-loop/switch region; other site 642492009294 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009295 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492009296 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009297 Walker A/P-loop; other site 642492009298 ATP binding site [chemical binding]; other site 642492009299 Q-loop/lid; other site 642492009300 ABC transporter signature motif; other site 642492009301 Walker B; other site 642492009302 D-loop; other site 642492009303 H-loop/switch region; other site 642492009304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492009305 Helix-turn-helix domains; Region: HTH; cl00088 642492009306 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 642492009307 dimerization interface [polypeptide binding]; other site 642492009308 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492009309 Helix-turn-helix domains; Region: HTH; cl00088 642492009310 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 642492009311 MatE; Region: MatE; cl10513 642492009312 MatE; Region: MatE; cl10513 642492009313 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 642492009314 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 642492009315 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 642492009316 Ca binding site [ion binding]; other site 642492009317 active site 642492009318 catalytic site [active] 642492009319 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 642492009320 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 642492009321 active site turn [active] 642492009322 phosphorylation site [posttranslational modification] 642492009323 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492009324 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 642492009325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492009326 DNA-binding site [nucleotide binding]; DNA binding site 642492009327 UTRA domain; Region: UTRA; cl01230 642492009328 phenazine biosynthesis protein PhzF family; Region: PhzF_family; TIGR00654 642492009329 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 642492009330 Cation efflux family; Region: Cation_efflux; cl00316 642492009331 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492009332 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492009333 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009334 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492009335 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492009336 putative active site [active] 642492009337 putative metal binding site [ion binding]; other site 642492009338 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 642492009339 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492009340 active site 642492009341 motif I; other site 642492009342 motif II; other site 642492009343 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492009344 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 642492009345 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 642492009346 dimerization interface 3.5A [polypeptide binding]; other site 642492009347 active site 642492009348 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009349 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 642492009350 PPIC-type PPIASE domain; Region: Rotamase; cl08278 642492009351 QueT transporter; Region: QueT; cl01932 642492009352 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 642492009353 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 642492009354 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 642492009355 FeS/SAM binding site; other site 642492009356 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 642492009357 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 642492009358 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492009359 Coenzyme A binding pocket [chemical binding]; other site 642492009360 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492009361 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 642492009362 substrate binding pocket [chemical binding]; other site 642492009363 membrane-bound complex binding site; other site 642492009364 hinge residues; other site 642492009365 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 642492009366 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 642492009367 dimer interface [polypeptide binding]; other site 642492009368 conserved gate region; other site 642492009369 putative PBP binding loops; other site 642492009370 ABC-ATPase subunit interface; other site 642492009371 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492009372 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 642492009373 Walker A/P-loop; other site 642492009374 ATP binding site [chemical binding]; other site 642492009375 Q-loop/lid; other site 642492009376 ABC transporter signature motif; other site 642492009377 Walker B; other site 642492009378 D-loop; other site 642492009379 H-loop/switch region; other site 642492009380 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 642492009381 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 642492009382 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492009383 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 642492009384 Walker A/P-loop; other site 642492009385 ATP binding site [chemical binding]; other site 642492009386 Q-loop/lid; other site 642492009387 ABC transporter signature motif; other site 642492009388 Walker B; other site 642492009389 D-loop; other site 642492009390 H-loop/switch region; other site 642492009391 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 642492009392 dimer interface [polypeptide binding]; other site 642492009393 conserved gate region; other site 642492009394 putative PBP binding loops; other site 642492009395 ABC-ATPase subunit interface; other site 642492009396 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492009397 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 642492009398 substrate binding pocket [chemical binding]; other site 642492009399 membrane-bound complex binding site; other site 642492009400 hinge residues; other site 642492009401 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 642492009402 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 642492009403 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492009404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 642492009405 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 642492009406 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 642492009407 Protein export membrane protein; Region: SecD_SecF; cl14618 642492009408 Protein export membrane protein; Region: SecD_SecF; cl14618 642492009409 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492009410 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492009411 Peptidase M16C associated; Region: M16C_assoc; pfam08367 642492009412 transketolase; Reviewed; Region: PRK05899 642492009413 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 642492009414 TPP-binding site [chemical binding]; other site 642492009415 dimer interface [polypeptide binding]; other site 642492009416 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 642492009417 PYR/PP interface [polypeptide binding]; other site 642492009418 dimer interface [polypeptide binding]; other site 642492009419 TPP binding site [chemical binding]; other site 642492009420 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492009421 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 642492009422 DNA binding site [nucleotide binding] 642492009423 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 642492009424 IncA protein; Region: IncA; pfam04156 642492009425 Helix-turn-helix domains; Region: HTH; cl00088 642492009426 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 642492009427 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 642492009428 Walker A motif; other site 642492009429 ATP binding site [chemical binding]; other site 642492009430 Walker B motif; other site 642492009431 Uncharacterized conserved protein [Function unknown]; Region: COG3410 642492009432 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 642492009433 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 642492009434 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492009435 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 642492009436 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 642492009437 C-terminal peptidase (prc); Region: prc; TIGR00225 642492009438 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 642492009439 protein binding site [polypeptide binding]; other site 642492009440 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 642492009441 Catalytic dyad [active] 642492009442 C-terminal peptidase (prc); Region: prc; TIGR00225 642492009443 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 642492009444 protein binding site [polypeptide binding]; other site 642492009445 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 642492009446 Active site serine [active] 642492009447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 642492009448 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492009449 FtsX-like permease family; Region: FtsX; cl15850 642492009450 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 642492009451 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009452 Walker A/P-loop; other site 642492009453 ATP binding site [chemical binding]; other site 642492009454 Q-loop/lid; other site 642492009455 ABC transporter signature motif; other site 642492009456 Walker B; other site 642492009457 D-loop; other site 642492009458 H-loop/switch region; other site 642492009459 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 642492009460 Helix-turn-helix domains; Region: HTH; cl00088 642492009461 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 642492009462 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 642492009463 Walker A/P-loop; other site 642492009464 ATP binding site [chemical binding]; other site 642492009465 Q-loop/lid; other site 642492009466 ABC transporter signature motif; other site 642492009467 Walker B; other site 642492009468 D-loop; other site 642492009469 H-loop/switch region; other site 642492009470 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 642492009471 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 642492009472 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 642492009473 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 642492009474 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 642492009475 endonuclease IV; Provisional; Region: PRK01060 642492009476 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 642492009477 AP (apurinic/apyrimidinic) site pocket; other site 642492009478 DNA interaction; other site 642492009479 Metal-binding active site; metal-binding site 642492009480 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 642492009481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492009482 NAD(P) binding site [chemical binding]; other site 642492009483 active site 642492009484 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 642492009485 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 642492009486 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 642492009487 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 642492009488 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 642492009489 23S rRNA interface [nucleotide binding]; other site 642492009490 L3 interface [polypeptide binding]; other site 642492009491 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 642492009492 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 642492009493 dimerization interface 3.5A [polypeptide binding]; other site 642492009494 active site 642492009495 Cobalt transport protein; Region: CbiQ; cl00463 642492009496 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 642492009497 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 642492009498 Walker A/P-loop; other site 642492009499 ATP binding site [chemical binding]; other site 642492009500 Q-loop/lid; other site 642492009501 ABC transporter signature motif; other site 642492009502 Walker B; other site 642492009503 D-loop; other site 642492009504 H-loop/switch region; other site 642492009505 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 642492009506 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 642492009507 Walker A/P-loop; other site 642492009508 ATP binding site [chemical binding]; other site 642492009509 Q-loop/lid; other site 642492009510 ABC transporter signature motif; other site 642492009511 Walker B; other site 642492009512 D-loop; other site 642492009513 H-loop/switch region; other site 642492009514 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 642492009515 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 642492009516 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 642492009517 alphaNTD homodimer interface [polypeptide binding]; other site 642492009518 alphaNTD - beta interaction site [polypeptide binding]; other site 642492009519 alphaNTD - beta' interaction site [polypeptide binding]; other site 642492009520 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 642492009521 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 642492009522 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 642492009523 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 642492009524 RNA binding surface [nucleotide binding]; other site 642492009525 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 642492009526 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 642492009527 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 642492009528 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 642492009529 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 642492009530 rRNA binding site [nucleotide binding]; other site 642492009531 predicted 30S ribosome binding site; other site 642492009532 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 642492009533 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 642492009534 active site 642492009535 adenylate kinase; Reviewed; Region: adk; PRK00279 642492009536 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 642492009537 AMP-binding site [chemical binding]; other site 642492009538 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 642492009539 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 642492009540 SecY translocase; Region: SecY; pfam00344 642492009541 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 642492009542 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 642492009543 23S rRNA binding site [nucleotide binding]; other site 642492009544 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 642492009545 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 642492009546 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 642492009547 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 642492009548 5S rRNA interface [nucleotide binding]; other site 642492009549 L27 interface [polypeptide binding]; other site 642492009550 23S rRNA interface [nucleotide binding]; other site 642492009551 L5 interface [polypeptide binding]; other site 642492009552 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 642492009553 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 642492009554 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 642492009555 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 642492009556 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 642492009557 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 642492009558 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 642492009559 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 642492009560 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 642492009561 KOW motif; Region: KOW; cl00354 642492009562 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 642492009563 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 642492009564 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 642492009565 putative translocon interaction site; other site 642492009566 23S rRNA interface [nucleotide binding]; other site 642492009567 signal recognition particle (SRP54) interaction site; other site 642492009568 L23 interface [polypeptide binding]; other site 642492009569 trigger factor interaction site; other site 642492009570 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 642492009571 23S rRNA interface [nucleotide binding]; other site 642492009572 5S rRNA interface [nucleotide binding]; other site 642492009573 putative antibiotic binding site [chemical binding]; other site 642492009574 L25 interface [polypeptide binding]; other site 642492009575 L27 interface [polypeptide binding]; other site 642492009576 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 642492009577 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 642492009578 G-X-X-G motif; other site 642492009579 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 642492009580 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 642492009581 putative translocon binding site; other site 642492009582 protein-rRNA interface [nucleotide binding]; other site 642492009583 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 642492009584 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 642492009585 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 642492009586 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 642492009587 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 642492009588 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 642492009589 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 642492009590 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 642492009591 elongation factor Tu; Reviewed; Region: PRK00049 642492009592 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 642492009593 G1 box; other site 642492009594 GEF interaction site [polypeptide binding]; other site 642492009595 GTP/Mg2+ binding site [chemical binding]; other site 642492009596 Switch I region; other site 642492009597 G2 box; other site 642492009598 G3 box; other site 642492009599 Switch II region; other site 642492009600 G4 box; other site 642492009601 G5 box; other site 642492009602 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 642492009603 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 642492009604 Antibiotic Binding Site [chemical binding]; other site 642492009605 elongation factor G; Reviewed; Region: PRK00007 642492009606 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 642492009607 G1 box; other site 642492009608 putative GEF interaction site [polypeptide binding]; other site 642492009609 GTP/Mg2+ binding site [chemical binding]; other site 642492009610 Switch I region; other site 642492009611 G2 box; other site 642492009612 G3 box; other site 642492009613 Switch II region; other site 642492009614 G4 box; other site 642492009615 G5 box; other site 642492009616 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 642492009617 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 642492009618 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 642492009619 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 642492009620 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 642492009621 S17 interaction site [polypeptide binding]; other site 642492009622 S8 interaction site; other site 642492009623 16S rRNA interaction site [nucleotide binding]; other site 642492009624 streptomycin interaction site [chemical binding]; other site 642492009625 23S rRNA interaction site [nucleotide binding]; other site 642492009626 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 642492009627 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 642492009628 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 642492009629 putative active site [active] 642492009630 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 642492009631 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 642492009632 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 642492009633 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 642492009634 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 642492009635 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 642492009636 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 642492009637 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 642492009638 G-loop; other site 642492009639 DNA binding site [nucleotide binding] 642492009640 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 642492009641 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 642492009642 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 642492009643 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 642492009644 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 642492009645 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 642492009646 RPB10 interaction site [polypeptide binding]; other site 642492009647 RPB1 interaction site [polypeptide binding]; other site 642492009648 RPB11 interaction site [polypeptide binding]; other site 642492009649 RPB3 interaction site [polypeptide binding]; other site 642492009650 RPB12 interaction site [polypeptide binding]; other site 642492009651 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 642492009652 core dimer interface [polypeptide binding]; other site 642492009653 peripheral dimer interface [polypeptide binding]; other site 642492009654 L10 interface [polypeptide binding]; other site 642492009655 L11 interface [polypeptide binding]; other site 642492009656 putative EF-Tu interaction site [polypeptide binding]; other site 642492009657 putative EF-G interaction site [polypeptide binding]; other site 642492009658 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 642492009659 23S rRNA interface [nucleotide binding]; other site 642492009660 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 642492009661 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 642492009662 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 642492009663 inhibitor-cofactor binding pocket; inhibition site 642492009664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492009665 catalytic residue [active] 642492009666 phosphoribosylglycinamide formyltransferase 2; Region: purT; TIGR01142 642492009667 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492009668 Methyltransferase domain; Region: Methyltransf_31; pfam13847 642492009669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492009670 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 642492009671 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 642492009672 mRNA/rRNA interface [nucleotide binding]; other site 642492009673 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 642492009674 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 642492009675 23S rRNA interface [nucleotide binding]; other site 642492009676 L7/L12 interface [polypeptide binding]; other site 642492009677 putative thiostrepton binding site; other site 642492009678 L25 interface [polypeptide binding]; other site 642492009679 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 642492009680 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 642492009681 putative homodimer interface [polypeptide binding]; other site 642492009682 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 642492009683 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 642492009684 ligand binding site; other site 642492009685 tetramer interface; other site 642492009686 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 642492009687 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 642492009688 active site 642492009689 homodimer interface [polypeptide binding]; other site 642492009690 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 642492009691 NeuB family; Region: NeuB; cl00496 642492009692 SAF domain; Region: SAF; cl00555 642492009693 rod shape-determining protein MreC; Provisional; Region: PRK13922 642492009694 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 642492009695 binding surface 642492009696 TPR motif; other site 642492009697 TPR repeat; Region: TPR_11; pfam13414 642492009698 Sulfatase; Region: Sulfatase; cl10460 642492009699 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492009700 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 642492009701 PYR/PP interface [polypeptide binding]; other site 642492009702 dimer interface [polypeptide binding]; other site 642492009703 TPP binding site [chemical binding]; other site 642492009704 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 642492009705 TPP-binding site; other site 642492009706 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 642492009707 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 642492009708 putative active site [active] 642492009709 metal binding site [ion binding]; metal-binding site 642492009710 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492009711 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 642492009712 active site 642492009713 nucleotide binding site [chemical binding]; other site 642492009714 HIGH motif; other site 642492009715 KMSKS motif; other site 642492009716 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 642492009717 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 642492009718 tetramer interface [polypeptide binding]; other site 642492009719 active site 642492009720 Mg2+/Mn2+ binding site [ion binding]; other site 642492009721 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 642492009722 active site 642492009723 metal-binding site 642492009724 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 642492009725 ligand-binding site [chemical binding]; other site 642492009726 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 642492009727 binding surface 642492009728 TPR motif; other site 642492009729 TPR repeat; Region: TPR_11; pfam13414 642492009730 Sulfatase; Region: Sulfatase; cl10460 642492009731 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 642492009732 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 642492009733 putative trimer interface [polypeptide binding]; other site 642492009734 putative CoA binding site [chemical binding]; other site 642492009735 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 642492009736 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 642492009737 NAD binding site [chemical binding]; other site 642492009738 substrate binding site [chemical binding]; other site 642492009739 active site 642492009740 FOG: CBS domain [General function prediction only]; Region: COG0517 642492009741 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 642492009742 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 642492009743 Substrate binding site; other site 642492009744 metal-binding site 642492009745 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 642492009746 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 642492009747 inhibitor-cofactor binding pocket; inhibition site 642492009748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492009749 catalytic residue [active] 642492009750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 642492009751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 642492009752 Flagellar protein FliS; Region: FliS; cl00654 642492009753 flagellar capping protein; Validated; Region: fliD; PRK07737 642492009754 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 642492009755 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 642492009756 FlaG protein; Region: FlaG; cl00591 642492009757 flagellin; Provisional; Region: PRK12804 642492009758 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492009759 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 642492009760 Global regulator protein family; Region: CsrA; cl00670 642492009761 FliW protein; Region: FliW; cl00740 642492009762 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 642492009763 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492009764 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 642492009765 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 642492009766 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 642492009767 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 642492009768 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 642492009769 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 642492009770 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 642492009771 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 642492009772 FlgN protein; Region: FlgN; cl09176 642492009773 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 642492009774 flagellar operon protein TIGR03826; Region: YvyF 642492009775 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 642492009776 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492009777 active site 642492009778 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 642492009779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009780 Family description; Region: UvrD_C_2; cl15862 642492009781 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009782 S-adenosylmethionine synthetase; Validated; Region: PRK05250 642492009783 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 642492009784 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 642492009785 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 642492009786 Rod binding protein; Region: Rod-binding; cl01626 642492009787 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 642492009788 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 642492009789 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 642492009790 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 642492009791 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 642492009792 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 642492009793 rod shape-determining protein Mbl; Provisional; Region: PRK13928 642492009794 Cell division protein FtsA; Region: FtsA; cl11496 642492009795 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492009796 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 642492009797 catalytic triad [active] 642492009798 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 642492009799 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492009800 Stage II sporulation protein; Region: SpoIID; pfam08486 642492009801 stage II sporulation protein D; Region: spore_II_D; TIGR02870 642492009802 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 642492009803 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 642492009804 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 642492009805 minor groove reading motif; other site 642492009806 helix-hairpin-helix signature motif; other site 642492009807 substrate binding pocket [chemical binding]; other site 642492009808 active site 642492009809 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 642492009810 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 642492009811 DNA binding and oxoG recognition site [nucleotide binding] 642492009812 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 642492009813 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 642492009814 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 642492009815 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 642492009816 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 642492009817 alpha subunit interaction interface [polypeptide binding]; other site 642492009818 Walker A motif; other site 642492009819 ATP binding site [chemical binding]; other site 642492009820 Walker B motif; other site 642492009821 inhibitor binding site; inhibition site 642492009822 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492009823 ATP synthase; Region: ATP-synt; cl00365 642492009824 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 642492009825 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 642492009826 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 642492009827 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 642492009828 beta subunit interaction interface [polypeptide binding]; other site 642492009829 Walker A motif; other site 642492009830 ATP binding site [chemical binding]; other site 642492009831 Walker B motif; other site 642492009832 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492009833 Plant ATP synthase F0; Region: YMF19; cl07975 642492009834 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 642492009835 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 642492009836 Plant ATP synthase F0; Region: YMF19; cl07975 642492009837 ATP synthase subunit C; Region: ATP-synt_C; cl00466 642492009838 ATP synthase subunit C; Region: ATP-synt_C; cl00466 642492009839 ATP synthase subunit C; Region: ATP-synt_C; cl00466 642492009840 ATP synthase A chain; Region: ATP-synt_A; cl00413 642492009841 ATP synthase I chain; Region: ATP_synt_I; cl09170 642492009842 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 642492009843 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 642492009844 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 642492009845 active site 642492009846 homodimer interface [polypeptide binding]; other site 642492009847 GAF domain; Region: GAF; cl15785 642492009848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492009849 metal binding site [ion binding]; metal-binding site 642492009850 active site 642492009851 I-site; other site 642492009852 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 642492009853 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 642492009854 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 642492009855 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 642492009856 substrate binding pocket [chemical binding]; other site 642492009857 dimer interface [polypeptide binding]; other site 642492009858 inhibitor binding site; inhibition site 642492009859 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 642492009860 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 642492009861 B12 binding site [chemical binding]; other site 642492009862 cobalt ligand [ion binding]; other site 642492009863 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 642492009864 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 642492009865 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 642492009866 FAD binding site [chemical binding]; other site 642492009867 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 642492009868 active site 642492009869 DNA binding site [nucleotide binding] 642492009870 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 642492009871 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 642492009872 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 642492009873 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 642492009874 putative active site [active] 642492009875 catalytic site [active] 642492009876 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 642492009877 putative active site [active] 642492009878 catalytic site [active] 642492009879 Protein of unknown function (DUF342); Region: DUF342; pfam03961 642492009880 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 642492009881 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 642492009882 putative acyl-acceptor binding pocket; other site 642492009883 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 642492009884 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 642492009885 active site 642492009886 EamA-like transporter family; Region: EamA; cl01037 642492009887 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 642492009888 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492009889 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 642492009890 active site 642492009891 phosphorylation site [posttranslational modification] 642492009892 intermolecular recognition site; other site 642492009893 dimerization interface [polypeptide binding]; other site 642492009894 LytTr DNA-binding domain; Region: LytTR; cl04498 642492009895 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492009896 Response regulator receiver domain; Region: Response_reg; pfam00072 642492009897 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 642492009898 active site 642492009899 phosphorylation site [posttranslational modification] 642492009900 intermolecular recognition site; other site 642492009901 dimerization interface [polypeptide binding]; other site 642492009902 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 642492009903 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 642492009904 HIGH motif; other site 642492009905 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 642492009906 active site 642492009907 KMSKS motif; other site 642492009908 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 642492009909 tRNA binding surface [nucleotide binding]; other site 642492009910 anticodon binding site; other site 642492009911 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492009912 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492009913 dimer interface [polypeptide binding]; other site 642492009914 putative CheW interface [polypeptide binding]; other site 642492009915 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492009916 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492009917 dimer interface [polypeptide binding]; other site 642492009918 putative CheW interface [polypeptide binding]; other site 642492009919 AMP-binding domain protein; Validated; Region: PRK08315 642492009920 AMP-binding enzyme; Region: AMP-binding; cl15778 642492009921 AMP-binding enzyme; Region: AMP-binding; cl15778 642492009922 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 642492009923 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 642492009924 active site 642492009925 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 642492009926 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 642492009927 inhibitor-cofactor binding pocket; inhibition site 642492009928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492009929 catalytic residue [active] 642492009930 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 642492009931 dimer interface [polypeptide binding]; other site 642492009932 active site 642492009933 Schiff base residues; other site 642492009934 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 642492009935 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 642492009936 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 642492009937 active site 642492009938 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 642492009939 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 642492009940 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 642492009941 domain interfaces; other site 642492009942 active site 642492009943 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 642492009944 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 642492009945 tRNA; other site 642492009946 putative tRNA binding site [nucleotide binding]; other site 642492009947 putative NADP binding site [chemical binding]; other site 642492009948 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 642492009949 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 642492009950 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 642492009951 active site 642492009952 C-terminal domain interface [polypeptide binding]; other site 642492009953 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 642492009954 active site 642492009955 N-terminal domain interface [polypeptide binding]; other site 642492009956 VPS10 domain; Region: VPS10; smart00602 642492009957 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009958 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009959 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009960 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009961 Cellulose binding domain; Region: CBM_3; cl03026 642492009962 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 642492009963 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 642492009964 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 642492009965 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 642492009966 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 642492009967 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 bacteriocins; Region: Peptidase_C39B; cd02418 642492009968 putative active site [active] 642492009969 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492009970 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492009971 Walker A/P-loop; other site 642492009972 ATP binding site [chemical binding]; other site 642492009973 Q-loop/lid; other site 642492009974 ABC transporter signature motif; other site 642492009975 Walker B; other site 642492009976 D-loop; other site 642492009977 H-loop/switch region; other site 642492009978 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 642492009979 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 642492009980 ATP binding site [chemical binding]; other site 642492009981 Mg2+ binding site [ion binding]; other site 642492009982 G-X-G motif; other site 642492009983 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492009984 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 642492009985 active site 642492009986 phosphorylation site [posttranslational modification] 642492009987 intermolecular recognition site; other site 642492009988 dimerization interface [polypeptide binding]; other site 642492009989 LytTr DNA-binding domain; Region: LytTR; cl04498 642492009990 endoglucanase; Region: PLN02308 642492009991 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492009992 Cellulose binding domain; Region: CBM_3; cl03026 642492009993 Cellulose binding domain; Region: CBM_3; cl03026 642492009994 Glycosyl hydrolase family 48; Region: Glyco_hydro_48; pfam02011 642492009995 flagellin; Validated; Region: PRK08026 642492009996 Cellulose binding domain; Region: CBM_3; cl03026 642492009997 DNA polymerase IV; Reviewed; Region: PRK03103 642492009998 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 642492009999 active site 642492010000 DNA binding site [nucleotide binding] 642492010001 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 642492010002 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 642492010003 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 642492010004 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492010005 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492010006 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 642492010007 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 642492010008 active site 642492010009 metal binding site [ion binding]; metal-binding site 642492010010 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 642492010011 Helix-turn-helix domains; Region: HTH; cl00088 642492010012 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 642492010013 homodimer interface [polypeptide binding]; other site 642492010014 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 642492010015 active site pocket [active] 642492010016 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 642492010017 Ligand Binding Site [chemical binding]; other site 642492010018 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 642492010019 metal binding site [ion binding]; metal-binding site 642492010020 active site 642492010021 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 642492010022 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492010023 putative sugar binding sites [chemical binding]; other site 642492010024 Q-X-W motif; other site 642492010025 Cellulose binding domain; Region: CBM_2; cl02709 642492010026 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 642492010027 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 642492010028 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 642492010029 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492010030 active site 642492010031 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 642492010032 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 642492010033 Mg++ binding site [ion binding]; other site 642492010034 putative catalytic motif [active] 642492010035 substrate binding site [chemical binding]; other site 642492010036 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 642492010037 PilZ domain; Region: PilZ; cl01260 642492010038 putative hydratase; Provisional; Region: PRK11413 642492010039 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 642492010040 substrate binding site [chemical binding]; other site 642492010041 ligand binding site [chemical binding]; other site 642492010042 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 642492010043 substrate binding site [chemical binding]; other site 642492010044 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492010045 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492010046 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492010047 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492010048 Histidine kinase; Region: His_kinase; pfam06580 642492010049 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 642492010050 ATP binding site [chemical binding]; other site 642492010051 Mg2+ binding site [ion binding]; other site 642492010052 G-X-G motif; other site 642492010053 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 642492010054 Response regulator receiver domain; Region: Response_reg; pfam00072 642492010055 active site 642492010056 phosphorylation site [posttranslational modification] 642492010057 intermolecular recognition site; other site 642492010058 dimerization interface [polypeptide binding]; other site 642492010059 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 642492010060 metal binding triad [ion binding]; metal-binding site 642492010061 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 642492010062 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 642492010063 Nucleoside recognition; Region: Gate; cl00486 642492010064 Nucleoside recognition; Region: Gate; cl00486 642492010065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 642492010066 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 642492010067 MORN repeat; Region: MORN; cl14787 642492010068 Uncharacterized membrane protein [Function unknown]; Region: COG3949 642492010069 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492010070 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492010071 Zn2+ binding site [ion binding]; other site 642492010072 Mg2+ binding site [ion binding]; other site 642492010073 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 642492010074 Nitrogen regulatory protein P-II; Region: P-II; cl00412 642492010075 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492010076 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 642492010077 active site 642492010078 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 642492010079 dimer interface [polypeptide binding]; other site 642492010080 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 642492010081 Ligand Binding Site [chemical binding]; other site 642492010082 Molecular Tunnel; other site 642492010083 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 642492010084 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010085 DEAD_2; Region: DEAD_2; pfam06733 642492010086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010087 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 642492010088 DHH family; Region: DHH; pfam01368 642492010089 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 642492010090 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 642492010091 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 642492010092 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 642492010093 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492010094 Phage-related protein [Function unknown]; Region: COG5412 642492010095 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 642492010096 Protein of unknown function, DUF600; Region: DUF600; cl04640 642492010097 Phage-related protein [Function unknown]; Region: COG5412 642492010098 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 642492010099 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492010100 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 642492010101 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492010103 Helix-turn-helix domains; Region: HTH; cl00088 642492010104 putative transposase OrfB; Reviewed; Region: PHA02517 642492010105 HTH-like domain; Region: HTH_21; pfam13276 642492010106 Integrase core domain; Region: rve; cl01316 642492010107 Integrase core domain; Region: rve_3; cl15866 642492010108 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010109 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 642492010110 active site flap/lid [active] 642492010111 nucleophilic elbow; other site 642492010112 catalytic triad [active] 642492010113 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010114 KWG Leptospira; Region: KWG; pfam07656 642492010115 NlpC/P60 family; Region: NLPC_P60; cl11438 642492010116 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010117 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010118 NlpC/P60 family; Region: NLPC_P60; cl11438 642492010119 Lysozyme family protein [General function prediction only]; Region: COG5526 642492010120 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010121 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010122 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010123 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 642492010124 DNA-binding residues [nucleotide binding]; DNA binding site 642492010125 nucleotide binding site [chemical binding]; other site 642492010126 polymerase nucleotide-binding site; other site 642492010127 primase nucleotide-binding site [nucleotide binding]; other site 642492010128 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 642492010129 D5 N terminal like; Region: D5_N; cl07360 642492010130 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 642492010131 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010132 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010133 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 642492010134 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 642492010135 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 642492010136 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010137 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010138 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 642492010139 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010142 Ubiquitin-like proteins; Region: UBQ; cl00155 642492010143 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 642492010144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010145 Walker A motif; other site 642492010146 ATP binding site [chemical binding]; other site 642492010147 Walker B motif; other site 642492010148 AAA domain; Region: AAA_31; pfam13614 642492010149 AAA domain; Region: AAA_31; pfam13614 642492010150 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010151 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 642492010152 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 642492010153 hinge; other site 642492010154 active site 642492010155 YycH protein; Region: YycI; cl02015 642492010156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 642492010157 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 642492010158 dimerization interface [polypeptide binding]; other site 642492010159 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 642492010160 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 642492010161 dimer interface [polypeptide binding]; other site 642492010162 phosphorylation site [posttranslational modification] 642492010163 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 642492010164 ATP binding site [chemical binding]; other site 642492010165 Mg2+ binding site [ion binding]; other site 642492010166 G-X-G motif; other site 642492010167 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492010168 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 642492010169 active site 642492010170 phosphorylation site [posttranslational modification] 642492010171 intermolecular recognition site; other site 642492010172 dimerization interface [polypeptide binding]; other site 642492010173 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 642492010174 DNA binding site [nucleotide binding] 642492010175 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 642492010176 putative peptidoglycan binding site; other site 642492010177 S-layer homology domain; Region: SLH; pfam00395 642492010178 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 642492010179 DNA binding residues [nucleotide binding] 642492010180 putative lipid kinase; Reviewed; Region: PRK13059 642492010181 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 642492010182 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 642492010183 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 642492010184 Walker A/P-loop; other site 642492010185 ATP binding site [chemical binding]; other site 642492010186 Q-loop/lid; other site 642492010187 ABC transporter signature motif; other site 642492010188 Walker B; other site 642492010189 D-loop; other site 642492010190 H-loop/switch region; other site 642492010191 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492010192 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 642492010193 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 642492010194 Walker A/P-loop; other site 642492010195 ATP binding site [chemical binding]; other site 642492010196 Q-loop/lid; other site 642492010197 ABC transporter signature motif; other site 642492010198 Walker B; other site 642492010199 D-loop; other site 642492010200 H-loop/switch region; other site 642492010201 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492010202 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 642492010203 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 642492010204 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 642492010205 dimer interface [polypeptide binding]; other site 642492010206 conserved gate region; other site 642492010207 putative PBP binding loops; other site 642492010208 ABC-ATPase subunit interface; other site 642492010209 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 642492010210 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 642492010211 putative PBP binding loops; other site 642492010212 dimer interface [polypeptide binding]; other site 642492010213 ABC-ATPase subunit interface; other site 642492010214 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 642492010215 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 642492010216 peptide binding site [polypeptide binding]; other site 642492010217 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010218 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 642492010219 putative ADP-binding pocket [chemical binding]; other site 642492010220 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010221 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 642492010222 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010223 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 642492010224 GtrA-like protein; Region: GtrA; cl00971 642492010225 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 642492010226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010227 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 642492010228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010229 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 642492010230 S-adenosylmethionine binding site [chemical binding]; other site 642492010231 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 642492010232 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 642492010233 Ligand binding site; other site 642492010234 Putative Catalytic site; other site 642492010235 DXD motif; other site 642492010236 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 642492010237 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 642492010238 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 642492010239 NAD binding site [chemical binding]; other site 642492010240 substrate binding site [chemical binding]; other site 642492010241 homodimer interface [polypeptide binding]; other site 642492010242 active site 642492010243 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 642492010244 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 642492010245 substrate binding site; other site 642492010246 tetramer interface; other site 642492010247 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 642492010248 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 642492010249 Ligand binding site; other site 642492010250 Putative Catalytic site; other site 642492010251 DXD motif; other site 642492010252 Cupin domain; Region: Cupin_2; cl09118 642492010253 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 642492010254 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492010255 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 642492010256 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 642492010257 inhibitor-cofactor binding pocket; inhibition site 642492010258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010259 catalytic residue [active] 642492010260 Acyltransferase family; Region: Acyl_transf_3; pfam01757 642492010261 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 642492010262 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 642492010263 AMP deaminase; Region: PLN02768 642492010264 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 642492010265 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 642492010266 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010267 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 642492010268 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 642492010269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010270 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 642492010271 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 642492010272 Walker A/P-loop; other site 642492010273 ATP binding site [chemical binding]; other site 642492010274 Q-loop/lid; other site 642492010275 ABC transporter signature motif; other site 642492010276 Walker B; other site 642492010277 D-loop; other site 642492010278 H-loop/switch region; other site 642492010279 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492010280 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 642492010281 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 642492010282 inhibitor-cofactor binding pocket; inhibition site 642492010283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010284 catalytic residue [active] 642492010285 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 642492010286 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 642492010287 putative trimer interface [polypeptide binding]; other site 642492010288 putative CoA binding site [chemical binding]; other site 642492010289 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 642492010290 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 642492010291 NADP-binding site; other site 642492010292 homotetramer interface [polypeptide binding]; other site 642492010293 substrate binding site [chemical binding]; other site 642492010294 homodimer interface [polypeptide binding]; other site 642492010295 active site 642492010296 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 642492010297 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 642492010298 NADP-binding site; other site 642492010299 homotetramer interface [polypeptide binding]; other site 642492010300 substrate binding site [chemical binding]; other site 642492010301 homodimer interface [polypeptide binding]; other site 642492010302 active site 642492010303 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 642492010304 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 642492010305 Substrate binding site; other site 642492010306 Cupin domain; Region: Cupin_2; cl09118 642492010307 O-Antigen ligase; Region: Wzy_C; cl04850 642492010308 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 642492010309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010310 Bacterial sugar transferase; Region: Bac_transf; cl00939 642492010311 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010312 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010313 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010314 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010315 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010316 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010317 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010318 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 642492010319 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 642492010320 putative active site [active] 642492010321 putative metal binding site [ion binding]; other site 642492010322 S-layer homology domain; Region: SLH; pfam00395 642492010323 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 642492010324 active site 642492010325 tetramer interface; other site 642492010326 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 642492010327 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 642492010328 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 642492010329 ATP-grasp domain; Region: ATP-grasp_4; cl03087 642492010330 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 642492010331 Transposase IS200 like; Region: Y1_Tnp; cl00848 642492010332 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 642492010333 Spore germination protein; Region: Spore_permease; cl15802 642492010334 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 642492010335 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492010336 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492010337 DNA binding site [nucleotide binding] 642492010338 domain linker motif; other site 642492010339 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 642492010340 dimerization interface [polypeptide binding]; other site 642492010341 ligand binding site [chemical binding]; other site 642492010342 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 642492010343 homodimer interface [polypeptide binding]; other site 642492010344 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 642492010345 active site pocket [active] 642492010346 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 642492010347 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492010348 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 642492010349 dimer interface [polypeptide binding]; other site 642492010350 conserved gate region; other site 642492010351 putative PBP binding loops; other site 642492010352 ABC-ATPase subunit interface; other site 642492010353 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492010354 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 642492010355 dimer interface [polypeptide binding]; other site 642492010356 conserved gate region; other site 642492010357 putative PBP binding loops; other site 642492010358 ABC-ATPase subunit interface; other site 642492010359 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492010360 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492010361 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492010362 DNA binding site [nucleotide binding] 642492010363 domain linker motif; other site 642492010364 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 642492010365 dimerization interface [polypeptide binding]; other site 642492010366 ligand binding site [chemical binding]; other site 642492010367 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 642492010368 putative substrate binding site [chemical binding]; other site 642492010369 putative ATP binding site [chemical binding]; other site 642492010370 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 642492010371 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 642492010372 active site 642492010373 phosphorylation site [posttranslational modification] 642492010374 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 642492010375 P-loop; other site 642492010376 active site 642492010377 phosphorylation site [posttranslational modification] 642492010378 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492010379 Cache domain; Region: Cache_1; pfam02743 642492010380 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492010381 dimer interface [polypeptide binding]; other site 642492010382 putative CheW interface [polypeptide binding]; other site 642492010383 Predicted esterase [General function prediction only]; Region: COG0400 642492010384 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 642492010385 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 642492010386 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 642492010387 putative active site [active] 642492010388 catalytic site [active] 642492010389 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 642492010390 putative active site [active] 642492010391 catalytic site [active] 642492010392 acetyl esterase; Provisional; Region: PRK10162 642492010393 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 642492010394 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 642492010395 active site 642492010396 catalytic residues [active] 642492010397 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 642492010398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010399 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 642492010400 homodimer interface [polypeptide binding]; other site 642492010401 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 642492010402 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492010403 active site 642492010404 homodimer interface [polypeptide binding]; other site 642492010405 catalytic site [active] 642492010406 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 642492010407 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492010408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492010409 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 642492010410 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492010411 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 642492010412 substrate binding site [chemical binding]; other site 642492010413 ATP binding site [chemical binding]; other site 642492010414 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492010415 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 642492010416 substrate binding site [chemical binding]; other site 642492010417 ATP binding site [chemical binding]; other site 642492010418 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 642492010419 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 642492010420 active site 642492010421 intersubunit interface [polypeptide binding]; other site 642492010422 catalytic residue [active] 642492010423 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 642492010424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 642492010425 YheO-like PAS domain; Region: PAS_6; pfam08348 642492010426 Helix-turn-helix domains; Region: HTH; cl00088 642492010427 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_27; cd04686 642492010428 nudix motif; other site 642492010429 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 642492010430 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 642492010431 dimer interface [polypeptide binding]; other site 642492010432 phosphorylation site [posttranslational modification] 642492010433 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 642492010434 ATP binding site [chemical binding]; other site 642492010435 Mg2+ binding site [ion binding]; other site 642492010436 G-X-G motif; other site 642492010437 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492010438 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 642492010439 active site 642492010440 phosphorylation site [posttranslational modification] 642492010441 intermolecular recognition site; other site 642492010442 dimerization interface [polypeptide binding]; other site 642492010443 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 642492010444 DNA binding site [nucleotide binding] 642492010445 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010446 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 642492010447 Pectic acid lyase; Region: Pec_lyase; pfam09492 642492010448 YibE/F-like protein; Region: YibE_F; cl02259 642492010449 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 642492010450 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 642492010451 active site 642492010452 dimer interface [polypeptide binding]; other site 642492010453 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 642492010454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492010455 metal binding site [ion binding]; metal-binding site 642492010456 active site 642492010457 I-site; other site 642492010458 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 642492010459 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 642492010460 putative catalytic cysteine [active] 642492010461 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 642492010462 putative active site [active] 642492010463 metal binding site [ion binding]; metal-binding site 642492010464 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492010465 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492010466 dimer interface [polypeptide binding]; other site 642492010467 putative CheW interface [polypeptide binding]; other site 642492010468 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 642492010469 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 642492010470 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492010471 MoxR-like ATPases [General function prediction only]; Region: COG0714 642492010472 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 642492010473 Walker A motif; other site 642492010474 ATP binding site [chemical binding]; other site 642492010475 Walker B motif; other site 642492010476 arginine finger; other site 642492010477 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 642492010478 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492010479 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492010480 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 642492010481 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492010482 MatE; Region: MatE; cl10513 642492010483 MatE; Region: MatE; cl10513 642492010484 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 642492010485 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 642492010486 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 642492010487 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 642492010488 Phosphopantetheine attachment site; Region: PP-binding; cl09936 642492010489 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 642492010490 AMP-binding enzyme; Region: AMP-binding; cl15778 642492010491 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 642492010492 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 642492010493 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 642492010494 active site 642492010495 peptide synthase; Provisional; Region: PRK12316 642492010496 AMP-binding enzyme; Region: AMP-binding; cl15778 642492010497 Phosphopantetheine attachment site; Region: PP-binding; cl09936 642492010498 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 642492010499 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 642492010500 AMP-binding enzyme; Region: AMP-binding; cl15778 642492010501 acetoacetyl-CoA synthase; Region: ac_ac_CoA_syn; TIGR01217 642492010502 Phosphopantetheine attachment site; Region: PP-binding; cl09936 642492010503 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 642492010504 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492010505 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492010506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010507 Walker A/P-loop; other site 642492010508 ATP binding site [chemical binding]; other site 642492010509 Q-loop/lid; other site 642492010510 ABC transporter signature motif; other site 642492010511 Walker B; other site 642492010512 D-loop; other site 642492010513 H-loop/switch region; other site 642492010514 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492010515 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492010516 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 642492010517 dimer interface [polypeptide binding]; other site 642492010518 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492010519 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 642492010520 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492010521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492010522 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 642492010523 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492010524 putative substrate translocation pore; other site 642492010525 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 642492010526 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 642492010527 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492010528 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 642492010529 DNA binding residues [nucleotide binding] 642492010530 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 642492010531 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492010532 MatE; Region: MatE; cl10513 642492010533 MatE; Region: MatE; cl10513 642492010534 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 642492010535 Peptidase family U32; Region: Peptidase_U32; cl03113 642492010536 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492010537 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492010538 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 642492010539 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 642492010540 Helix-turn-helix domains; Region: HTH; cl00088 642492010541 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492010542 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 642492010543 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492010544 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 642492010545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010546 Walker A/P-loop; other site 642492010547 ATP binding site [chemical binding]; other site 642492010548 Q-loop/lid; other site 642492010549 ABC transporter signature motif; other site 642492010550 Walker B; other site 642492010551 D-loop; other site 642492010552 H-loop/switch region; other site 642492010553 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 642492010554 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 642492010555 Walker A/P-loop; other site 642492010556 ATP binding site [chemical binding]; other site 642492010557 Q-loop/lid; other site 642492010558 ABC transporter signature motif; other site 642492010559 Walker B; other site 642492010560 D-loop; other site 642492010561 H-loop/switch region; other site 642492010562 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492010563 metal ion-dependent adhesion site (MIDAS); other site 642492010564 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 642492010565 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 642492010566 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 642492010567 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 642492010568 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 642492010569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010570 catalytic residue [active] 642492010571 Winged helix-turn helix; Region: HTH_29; pfam13551 642492010572 Helix-turn-helix domains; Region: HTH; cl00088 642492010573 Helix-turn-helix domains; Region: HTH; cl00088 642492010574 Winged helix-turn helix; Region: HTH_33; pfam13592 642492010575 Integrase core domain; Region: rve; cl01316 642492010576 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 642492010577 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 642492010578 FeS/SAM binding site; other site 642492010579 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 642492010580 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 642492010581 dimer interface [polypeptide binding]; other site 642492010582 pyridoxal binding site [chemical binding]; other site 642492010583 ATP binding site [chemical binding]; other site 642492010584 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 642492010585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492010586 DNA-binding site [nucleotide binding]; DNA binding site 642492010587 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 642492010588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010589 homodimer interface [polypeptide binding]; other site 642492010590 catalytic residue [active] 642492010591 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 642492010592 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 642492010593 Interdomain contacts; other site 642492010594 Cytokine receptor motif; other site 642492010595 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010596 hypothetical protein; Provisional; Region: PRK07208 642492010597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010598 UDP-galactopyranose mutase; Region: GLF; pfam03275 642492010599 TfoX N-terminal domain; Region: TfoX_N; cl01167 642492010600 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492010601 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 642492010602 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 642492010603 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 642492010604 active site turn [active] 642492010605 phosphorylation site [posttranslational modification] 642492010606 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 642492010607 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 642492010608 HPr interaction site; other site 642492010609 glycerol kinase (GK) interaction site [polypeptide binding]; other site 642492010610 active site 642492010611 phosphorylation site [posttranslational modification] 642492010612 transcriptional antiterminator BglG; Provisional; Region: PRK09772 642492010613 CAT RNA binding domain; Region: CAT_RBD; cl03904 642492010614 PRD domain; Region: PRD; cl15445 642492010615 PRD domain; Region: PRD; cl15445 642492010616 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 642492010617 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 642492010618 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492010619 active site 642492010620 nucleotide binding site [chemical binding]; other site 642492010621 HIGH motif; other site 642492010622 KMSKS motif; other site 642492010623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010624 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 642492010625 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 642492010626 nudix motif; other site 642492010627 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 642492010628 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492010629 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 642492010630 DNA binding residues [nucleotide binding] 642492010631 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 642492010632 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 642492010633 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 642492010634 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 642492010635 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 642492010636 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 642492010637 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 642492010638 ligand binding site [chemical binding]; other site 642492010639 Protein of unknown function (DUF421); Region: DUF421; cl00990 642492010640 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 642492010641 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 642492010642 5S rRNA interface [nucleotide binding]; other site 642492010643 CTC domain interface [polypeptide binding]; other site 642492010644 L16 interface [polypeptide binding]; other site 642492010645 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 642492010646 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 642492010647 putative substrate translocation pore; other site 642492010648 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492010649 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 642492010650 active site 642492010651 phosphorylation site [posttranslational modification] 642492010652 intermolecular recognition site; other site 642492010653 dimerization interface [polypeptide binding]; other site 642492010654 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 642492010655 DNA binding site [nucleotide binding] 642492010656 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 642492010657 dimer interface [polypeptide binding]; other site 642492010658 phosphorylation site [posttranslational modification] 642492010659 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 642492010660 ATP binding site [chemical binding]; other site 642492010661 Mg2+ binding site [ion binding]; other site 642492010662 G-X-G motif; other site 642492010663 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 642492010664 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 642492010665 metal-binding site [ion binding] 642492010666 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 642492010667 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 642492010668 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 642492010669 metal-binding site [ion binding] 642492010670 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 642492010671 metal-binding site [ion binding] 642492010672 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 642492010673 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 642492010674 metal-binding site [ion binding] 642492010675 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492010676 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 642492010677 motif II; other site 642492010678 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 642492010679 Glycosyl hydrolase family 59; Region: Glyco_hydro_59; pfam02057 642492010680 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 642492010681 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492010682 Cellulose binding domain; Region: CBM_2; cl02709 642492010683 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 642492010684 substrate binding site [chemical binding]; other site 642492010685 active site 642492010686 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 642492010687 metal binding site [ion binding]; metal-binding site 642492010688 ligand binding site [chemical binding]; other site 642492010689 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 642492010690 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492010691 Cellulose binding domain; Region: CBM_2; cl02709 642492010692 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492010693 Helix-turn-helix domains; Region: HTH; cl00088 642492010694 Helix-turn-helix domains; Region: HTH; cl00088 642492010695 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 642492010696 MatE; Region: MatE; cl10513 642492010697 MatE; Region: MatE; cl10513 642492010698 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 642492010699 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 642492010700 Predicted acetyltransferase [General function prediction only]; Region: COG3153 642492010701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492010702 Coenzyme A binding pocket [chemical binding]; other site 642492010703 Predicted acetyltransferase [General function prediction only]; Region: COG3393 642492010704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492010705 Coenzyme A binding pocket [chemical binding]; other site 642492010706 aspartate racemase; Region: asp_race; TIGR00035 642492010707 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 642492010708 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 642492010709 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 642492010710 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 642492010711 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 642492010712 Metal-binding active site; metal-binding site 642492010713 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 642492010714 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 642492010715 motif II; other site 642492010716 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 642492010717 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 642492010718 tetrameric interface [polypeptide binding]; other site 642492010719 activator binding site; other site 642492010720 NADP binding site [chemical binding]; other site 642492010721 substrate binding site [chemical binding]; other site 642492010722 catalytic residues [active] 642492010723 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 642492010724 AIR carboxylase; Region: AIRC; cl00310 642492010725 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 642492010726 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492010727 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492010728 Walker A/P-loop; other site 642492010729 ATP binding site [chemical binding]; other site 642492010730 Q-loop/lid; other site 642492010731 ABC transporter signature motif; other site 642492010732 Walker B; other site 642492010733 D-loop; other site 642492010734 H-loop/switch region; other site 642492010735 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 642492010736 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492010737 DNA binding residues [nucleotide binding] 642492010738 dimer interface [polypeptide binding]; other site 642492010739 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 642492010740 MatE; Region: MatE; cl10513 642492010741 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492010742 MatE; Region: MatE; cl10513 642492010743 Cupin domain; Region: Cupin_2; cl09118 642492010744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492010745 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492010746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492010747 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 642492010748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010749 NAD(P) binding site [chemical binding]; other site 642492010750 LDH/MDH dimer interface [polypeptide binding]; other site 642492010751 substrate binding site [chemical binding]; other site 642492010752 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492010753 MatE; Region: MatE; cl10513 642492010754 MatE; Region: MatE; cl10513 642492010755 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 642492010756 peptide synthase; Provisional; Region: PRK09274 642492010757 AMP-binding enzyme; Region: AMP-binding; cl15778 642492010758 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492010759 Coenzyme A binding pocket [chemical binding]; other site 642492010760 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 642492010761 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 642492010762 active site 642492010763 active site 642492010764 catalytic residues [active] 642492010765 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492010766 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 642492010767 putative sugar binding sites [chemical binding]; other site 642492010768 Q-X-W motif; other site 642492010769 S-layer homology domain; Region: SLH; pfam00395 642492010770 S-layer homology domain; Region: SLH; pfam00395 642492010771 S-layer homology domain; Region: SLH; pfam00395 642492010772 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 642492010773 active site 642492010774 catalytic residues [active] 642492010775 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492010776 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492010777 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492010778 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492010779 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492010780 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492010781 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 642492010782 active site 642492010783 active site 642492010784 catalytic residues [active] 642492010785 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492010786 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492010787 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492010788 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 642492010789 dimer interface [polypeptide binding]; other site 642492010790 conserved gate region; other site 642492010791 putative PBP binding loops; other site 642492010792 ABC-ATPase subunit interface; other site 642492010793 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492010794 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 642492010795 dimer interface [polypeptide binding]; other site 642492010796 conserved gate region; other site 642492010797 putative PBP binding loops; other site 642492010798 ABC-ATPase subunit interface; other site 642492010799 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 642492010800 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492010801 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492010802 Histidine kinase; Region: His_kinase; pfam06580 642492010803 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 642492010804 ATP binding site [chemical binding]; other site 642492010805 Mg2+ binding site [ion binding]; other site 642492010806 G-X-G motif; other site 642492010807 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 642492010808 Response regulator receiver domain; Region: Response_reg; pfam00072 642492010809 active site 642492010810 phosphorylation site [posttranslational modification] 642492010811 intermolecular recognition site; other site 642492010812 dimerization interface [polypeptide binding]; other site 642492010813 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492010814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492010815 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 642492010816 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 642492010817 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 642492010818 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 642492010819 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492010820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492010821 dimer interface [polypeptide binding]; other site 642492010822 putative CheW interface [polypeptide binding]; other site 642492010823 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 642492010824 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 642492010825 Uncharacterized conserved protein [Function unknown]; Region: COG3603 642492010826 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492010827 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 642492010828 active site 642492010829 NTP binding site [chemical binding]; other site 642492010830 metal binding triad [ion binding]; metal-binding site 642492010831 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 642492010832 phosphoenolpyruvate synthase; Validated; Region: PRK06241 642492010833 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 642492010834 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 642492010835 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 642492010836 active site 642492010837 motif I; other site 642492010838 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 642492010839 motif II; other site 642492010840 Condensation domain; Region: Condensation; pfam00668 642492010841 UbiA prenyltransferase family; Region: UbiA; cl00337 642492010842 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492010843 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 642492010844 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492010845 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 642492010846 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492010847 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 642492010848 active site 642492010849 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492010850 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492010851 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 642492010852 Walker A/P-loop; other site 642492010853 ATP binding site [chemical binding]; other site 642492010854 Q-loop/lid; other site 642492010855 ABC transporter signature motif; other site 642492010856 Walker B; other site 642492010857 D-loop; other site 642492010858 H-loop/switch region; other site 642492010859 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492010860 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492010861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010862 Walker A/P-loop; other site 642492010863 ATP binding site [chemical binding]; other site 642492010864 Q-loop/lid; other site 642492010865 ABC transporter signature motif; other site 642492010866 Walker B; other site 642492010867 D-loop; other site 642492010868 H-loop/switch region; other site 642492010869 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 642492010870 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492010871 DNA binding residues [nucleotide binding] 642492010872 dimer interface [polypeptide binding]; other site 642492010873 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492010874 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 642492010875 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492010876 Walker A/P-loop; other site 642492010877 ATP binding site [chemical binding]; other site 642492010878 Q-loop/lid; other site 642492010879 ABC transporter signature motif; other site 642492010880 Walker B; other site 642492010881 D-loop; other site 642492010882 H-loop/switch region; other site 642492010883 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 642492010884 TM-ABC transporter signature motif; other site 642492010885 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 642492010886 zinc binding site [ion binding]; other site 642492010887 putative ligand binding site [chemical binding]; other site 642492010888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492010889 Helix-turn-helix domains; Region: HTH; cl00088 642492010890 Helix-turn-helix domains; Region: HTH; cl00088 642492010891 putative transposase OrfB; Reviewed; Region: PHA02517 642492010892 HTH-like domain; Region: HTH_21; pfam13276 642492010893 Integrase core domain; Region: rve; cl01316 642492010894 Integrase core domain; Region: rve_3; cl15866 642492010895 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 642492010896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492010897 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 642492010898 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 642492010899 nudix motif; other site 642492010900 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 642492010901 metal binding site [ion binding]; metal-binding site 642492010902 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 642492010903 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492010904 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 642492010905 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 642492010906 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 642492010907 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 642492010908 putative NAD(P) binding site [chemical binding]; other site 642492010909 active site 642492010910 AMP-binding enzyme; Region: AMP-binding; cl15778 642492010911 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 642492010912 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 642492010913 NAD(P) binding site [chemical binding]; other site 642492010914 catalytic residues [active] 642492010915 peroxiredoxin; Region: AhpC; TIGR03137 642492010916 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 642492010917 dimer interface [polypeptide binding]; other site 642492010918 decamer (pentamer of dimers) interface [polypeptide binding]; other site 642492010919 catalytic triad [active] 642492010920 peroxidatic and resolving cysteines [active] 642492010921 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 642492010922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492010923 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 642492010924 catalytic residue [active] 642492010925 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 642492010926 catalytic residues [active] 642492010927 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 642492010928 conserved cys residue [active] 642492010929 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 642492010930 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 642492010931 Metal-binding active site; metal-binding site 642492010932 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 642492010933 active site 642492010934 catalytic site [active] 642492010935 MOZ/SAS family; Region: MOZ_SAS; pfam01853 642492010936 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 642492010937 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 642492010938 substrate binding pocket [chemical binding]; other site 642492010939 membrane-bound complex binding site; other site 642492010940 hinge residues; other site 642492010941 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492010942 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 642492010943 Walker A/P-loop; other site 642492010944 ATP binding site [chemical binding]; other site 642492010945 Q-loop/lid; other site 642492010946 ABC transporter signature motif; other site 642492010947 Walker B; other site 642492010948 D-loop; other site 642492010949 H-loop/switch region; other site 642492010950 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492010951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 642492010952 Flavin Reductases; Region: FlaRed; cl00801 642492010953 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 642492010954 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 642492010955 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 642492010956 motif II; other site 642492010957 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492010958 FtsX-like permease family; Region: FtsX; cl15850 642492010959 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 642492010960 FtsX-like permease family; Region: FtsX; cl15850 642492010961 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492010962 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 642492010963 Walker A/P-loop; other site 642492010964 ATP binding site [chemical binding]; other site 642492010965 Q-loop/lid; other site 642492010966 ABC transporter signature motif; other site 642492010967 Walker B; other site 642492010968 D-loop; other site 642492010969 H-loop/switch region; other site 642492010970 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 642492010971 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 642492010972 dimer interface [polypeptide binding]; other site 642492010973 phosphorylation site [posttranslational modification] 642492010974 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 642492010975 ATP binding site [chemical binding]; other site 642492010976 Mg2+ binding site [ion binding]; other site 642492010977 G-X-G motif; other site 642492010978 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492010979 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 642492010980 active site 642492010981 phosphorylation site [posttranslational modification] 642492010982 intermolecular recognition site; other site 642492010983 dimerization interface [polypeptide binding]; other site 642492010984 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 642492010985 DNA binding site [nucleotide binding] 642492010986 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 642492010987 active site 642492010988 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492010989 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 642492010990 Walker A/P-loop; other site 642492010991 ATP binding site [chemical binding]; other site 642492010992 Q-loop/lid; other site 642492010993 ABC transporter signature motif; other site 642492010994 Walker B; other site 642492010995 D-loop; other site 642492010996 H-loop/switch region; other site 642492010997 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 642492010998 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492010999 Protein of unknown function (DUF454); Region: DUF454; cl01063 642492011000 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 642492011001 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492011002 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011003 Walker A/P-loop; other site 642492011004 ATP binding site [chemical binding]; other site 642492011005 Q-loop/lid; other site 642492011006 ABC transporter signature motif; other site 642492011007 Walker B; other site 642492011008 D-loop; other site 642492011009 H-loop/switch region; other site 642492011010 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011011 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492011012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011013 Walker A/P-loop; other site 642492011014 ATP binding site [chemical binding]; other site 642492011015 Q-loop/lid; other site 642492011016 ABC transporter signature motif; other site 642492011017 Walker B; other site 642492011018 D-loop; other site 642492011019 H-loop/switch region; other site 642492011020 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 642492011021 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 642492011022 Helix-turn-helix domains; Region: HTH; cl00088 642492011023 phytoene desaturase; Region: crtI_fam; TIGR02734 642492011024 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 642492011025 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011026 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 642492011027 DNA binding residues [nucleotide binding] 642492011028 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 642492011029 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492011030 DNA binding residues [nucleotide binding] 642492011031 drug binding residues [chemical binding]; other site 642492011032 dimer interface [polypeptide binding]; other site 642492011033 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492011034 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492011035 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492011036 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 642492011037 Walker A/P-loop; other site 642492011038 ATP binding site [chemical binding]; other site 642492011039 Q-loop/lid; other site 642492011040 ABC transporter signature motif; other site 642492011041 Walker B; other site 642492011042 D-loop; other site 642492011043 H-loop/switch region; other site 642492011044 Predicted acetyltransferase [General function prediction only]; Region: COG3393 642492011045 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492011046 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 642492011047 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492011048 FeS/SAM binding site; other site 642492011049 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492011050 Winged helix-turn helix; Region: HTH_29; pfam13551 642492011051 Helix-turn-helix domains; Region: HTH; cl00088 642492011052 Helix-turn-helix domains; Region: HTH; cl00088 642492011053 Winged helix-turn helix; Region: HTH_33; pfam13592 642492011054 Integrase core domain; Region: rve; cl01316 642492011055 Isochorismatase family; Region: Isochorismatase; pfam00857 642492011056 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 642492011057 catalytic triad [active] 642492011058 conserved cis-peptide bond; other site 642492011059 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 642492011060 catalytic residues [active] 642492011061 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011062 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492011063 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 642492011064 Walker A/P-loop; other site 642492011065 ATP binding site [chemical binding]; other site 642492011066 Q-loop/lid; other site 642492011067 ABC transporter signature motif; other site 642492011068 Walker B; other site 642492011069 D-loop; other site 642492011070 H-loop/switch region; other site 642492011071 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011072 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492011073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011074 Walker A/P-loop; other site 642492011075 ATP binding site [chemical binding]; other site 642492011076 Q-loop/lid; other site 642492011077 ABC transporter signature motif; other site 642492011078 Walker B; other site 642492011079 D-loop; other site 642492011080 H-loop/switch region; other site 642492011081 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 642492011082 Cupin domain; Region: Cupin_2; cl09118 642492011083 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 642492011084 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 642492011085 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 642492011086 putative hexamer interface [polypeptide binding]; other site 642492011087 putative hexagonal pore; other site 642492011088 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 642492011089 putative hexamer interface [polypeptide binding]; other site 642492011090 putative hexagonal pore; other site 642492011091 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 642492011092 Hexamer/Pentamer interface [polypeptide binding]; other site 642492011093 central pore; other site 642492011094 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 642492011095 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 642492011096 Propanediol utilisation protein PduL; Region: PduL; pfam06130 642492011097 Propanediol utilisation protein PduL; Region: PduL; pfam06130 642492011098 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 642492011099 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 642492011100 Hexamer interface [polypeptide binding]; other site 642492011101 Putative hexagonal pore residue; other site 642492011102 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 642492011103 putative catalytic cysteine [active] 642492011104 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 642492011105 Hexamer interface [polypeptide binding]; other site 642492011106 Hexagonal pore residue; other site 642492011107 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 642492011108 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 642492011109 putative hexamer interface [polypeptide binding]; other site 642492011110 putative hexagonal pore; other site 642492011111 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 642492011112 putative hexamer interface [polypeptide binding]; other site 642492011113 putative hexagonal pore; other site 642492011114 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 642492011115 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 642492011116 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 642492011117 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 642492011118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011119 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 642492011120 putative hexamer interface [polypeptide binding]; other site 642492011121 putative hexagonal pore; other site 642492011122 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 642492011123 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 642492011124 putative active site [active] 642492011125 metal binding site [ion binding]; metal-binding site 642492011126 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 642492011127 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 642492011128 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 642492011129 active site 642492011130 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492011131 MatE; Region: MatE; cl10513 642492011132 MatE; Region: MatE; cl10513 642492011133 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492011134 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 642492011135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492011136 Helix-turn-helix domains; Region: HTH; cl00088 642492011137 WHG domain; Region: WHG; pfam13305 642492011138 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 642492011139 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011140 Walker A/P-loop; other site 642492011141 ATP binding site [chemical binding]; other site 642492011142 Q-loop/lid; other site 642492011143 ABC transporter signature motif; other site 642492011144 Walker B; other site 642492011145 D-loop; other site 642492011146 H-loop/switch region; other site 642492011147 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011149 Walker A/P-loop; other site 642492011150 ATP binding site [chemical binding]; other site 642492011151 Q-loop/lid; other site 642492011152 ABC transporter signature motif; other site 642492011153 Walker B; other site 642492011154 D-loop; other site 642492011155 H-loop/switch region; other site 642492011156 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 642492011157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011158 Walker A/P-loop; other site 642492011159 ATP binding site [chemical binding]; other site 642492011160 Q-loop/lid; other site 642492011161 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011162 ABC transporter signature motif; other site 642492011163 Walker B; other site 642492011164 D-loop; other site 642492011165 H-loop/switch region; other site 642492011166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011167 Walker A/P-loop; other site 642492011168 ATP binding site [chemical binding]; other site 642492011169 Q-loop/lid; other site 642492011170 ABC transporter signature motif; other site 642492011171 Walker B; other site 642492011172 D-loop; other site 642492011173 H-loop/switch region; other site 642492011174 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 642492011175 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 642492011176 dimer interface [polypeptide binding]; other site 642492011177 phosphorylation site [posttranslational modification] 642492011178 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 642492011179 ATP binding site [chemical binding]; other site 642492011180 Mg2+ binding site [ion binding]; other site 642492011181 G-X-G motif; other site 642492011182 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 642492011183 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 642492011184 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 642492011185 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 642492011186 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492011187 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492011188 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492011189 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492011190 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492011191 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 642492011192 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 642492011193 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 642492011194 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 642492011195 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 642492011196 Cache domain; Region: Cache_1; pfam02743 642492011197 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492011198 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492011199 dimer interface [polypeptide binding]; other site 642492011200 putative CheW interface [polypeptide binding]; other site 642492011201 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492011202 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 642492011203 putative substrate translocation pore; other site 642492011204 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011205 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 642492011206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011207 Walker A/P-loop; other site 642492011208 ATP binding site [chemical binding]; other site 642492011209 Q-loop/lid; other site 642492011210 ABC transporter signature motif; other site 642492011211 Walker B; other site 642492011212 D-loop; other site 642492011213 H-loop/switch region; other site 642492011214 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 642492011215 putative DNA binding site [nucleotide binding]; other site 642492011216 putative Zn2+ binding site [ion binding]; other site 642492011217 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 642492011218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011219 Walker A/P-loop; other site 642492011220 ATP binding site [chemical binding]; other site 642492011221 Q-loop/lid; other site 642492011222 ABC transporter signature motif; other site 642492011223 Walker B; other site 642492011224 D-loop; other site 642492011225 H-loop/switch region; other site 642492011226 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 642492011227 TM-ABC transporter signature motif; other site 642492011228 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 642492011229 zinc binding site [ion binding]; other site 642492011230 putative ligand binding site [chemical binding]; other site 642492011231 Sodium:solute symporter family; Region: SSF; cl00456 642492011232 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 642492011233 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 642492011234 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 642492011235 active site 642492011236 substrate binding site [chemical binding]; other site 642492011237 metal binding site [ion binding]; metal-binding site 642492011238 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 642492011239 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 642492011240 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 642492011241 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 642492011242 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 642492011243 putative peptidoglycan binding site; other site 642492011244 YabG peptidase U57; Region: Peptidase_U57; cl05250 642492011245 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 642492011246 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 642492011247 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 642492011248 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492011249 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492011250 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 642492011251 active site 642492011252 NTP binding site [chemical binding]; other site 642492011253 metal binding triad [ion binding]; metal-binding site 642492011254 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 642492011255 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492011256 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 642492011257 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 642492011258 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 642492011259 Walker A/P-loop; other site 642492011260 ATP binding site [chemical binding]; other site 642492011261 Q-loop/lid; other site 642492011262 ABC transporter signature motif; other site 642492011263 Walker B; other site 642492011264 D-loop; other site 642492011265 H-loop/switch region; other site 642492011266 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 642492011267 dimer interface [polypeptide binding]; other site 642492011268 conserved gate region; other site 642492011269 putative PBP binding loops; other site 642492011270 ABC-ATPase subunit interface; other site 642492011271 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492011272 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 642492011273 substrate binding pocket [chemical binding]; other site 642492011274 membrane-bound complex binding site; other site 642492011275 hinge residues; other site 642492011276 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 642492011277 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 642492011278 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 642492011279 RNA/DNA hybrid binding site [nucleotide binding]; other site 642492011280 active site 642492011281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011282 Coenzyme A binding pocket [chemical binding]; other site 642492011283 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492011284 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 642492011285 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 642492011286 homodimer interface [polypeptide binding]; other site 642492011287 substrate-cofactor binding pocket; other site 642492011288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011289 catalytic residue [active] 642492011290 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492011291 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 642492011292 active site 642492011293 metal binding site [ion binding]; metal-binding site 642492011294 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 642492011295 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492011296 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 642492011297 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 642492011298 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 642492011299 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 642492011300 TPP-binding site [chemical binding]; other site 642492011301 putative dimer interface [polypeptide binding]; other site 642492011302 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: vorA; PRK08366 642492011303 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 642492011304 dimer interface [polypeptide binding]; other site 642492011305 PYR/PP interface [polypeptide binding]; other site 642492011306 TPP binding site [chemical binding]; other site 642492011307 substrate binding site [chemical binding]; other site 642492011308 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492011309 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 642492011310 4Fe-4S binding domain; Region: Fer4; cl02805 642492011311 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 642492011312 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 642492011313 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 642492011314 AMP-binding enzyme; Region: AMP-binding; cl15778 642492011315 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 642492011316 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 642492011317 homodimer interface [polypeptide binding]; other site 642492011318 substrate-cofactor binding pocket; other site 642492011319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011320 catalytic residue [active] 642492011321 FAD binding domain; Region: FAD_binding_4; pfam01565 642492011322 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 642492011323 NMT1-like family; Region: NMT1_2; cl15260 642492011324 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 642492011325 dimer interface [polypeptide binding]; other site 642492011326 conserved gate region; other site 642492011327 putative PBP binding loops; other site 642492011328 ABC-ATPase subunit interface; other site 642492011329 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 642492011330 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 642492011331 Walker A/P-loop; other site 642492011332 ATP binding site [chemical binding]; other site 642492011333 Q-loop/lid; other site 642492011334 ABC transporter signature motif; other site 642492011335 Walker B; other site 642492011336 D-loop; other site 642492011337 H-loop/switch region; other site 642492011338 NIL domain; Region: NIL; cl09633 642492011339 hypothetical protein; Provisional; Region: PRK08912 642492011340 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 642492011341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011342 homodimer interface [polypeptide binding]; other site 642492011343 catalytic residue [active] 642492011344 cystathionine beta-lyase; Provisional; Region: PRK07671 642492011345 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 642492011346 homodimer interface [polypeptide binding]; other site 642492011347 substrate-cofactor binding pocket; other site 642492011348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011349 catalytic residue [active] 642492011350 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 642492011351 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 642492011352 dimer interface [polypeptide binding]; other site 642492011353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011354 catalytic residue [active] 642492011355 Methyltransferase domain; Region: Methyltransf_31; pfam13847 642492011356 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 642492011357 S-adenosylmethionine binding site [chemical binding]; other site 642492011358 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 642492011359 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 642492011360 Repair protein; Region: Repair_PSII; cl01535 642492011361 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 642492011362 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 642492011363 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 642492011364 P loop; other site 642492011365 Nucleotide binding site [chemical binding]; other site 642492011366 DTAP/Switch II; other site 642492011367 Switch I; other site 642492011368 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 642492011369 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 642492011370 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 642492011371 P loop; other site 642492011372 Nucleotide binding site [chemical binding]; other site 642492011373 DTAP/Switch II; other site 642492011374 Switch I; other site 642492011375 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492011376 Helix-turn-helix domains; Region: HTH; cl00088 642492011377 Helix-turn-helix domains; Region: HTH; cl00088 642492011378 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 642492011379 ligand binding site [chemical binding]; other site 642492011380 flexible hinge region; other site 642492011381 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 642492011382 classical (c) SDRs; Region: SDR_c; cd05233 642492011383 NAD(P) binding site [chemical binding]; other site 642492011384 active site 642492011385 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 642492011386 EamA-like transporter family; Region: EamA; cl01037 642492011387 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 642492011388 hypothetical protein; Reviewed; Region: PRK09588 642492011389 WYL domain; Region: WYL; cl14852 642492011390 WYL domain; Region: WYL; cl14852 642492011391 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 642492011392 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492011393 Domain of unknown function (DUF2828); Region: DUF2828; pfam11443 642492011394 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 642492011395 metal ion-dependent adhesion site (MIDAS); other site 642492011396 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 642492011397 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492011398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011399 Walker A/P-loop; other site 642492011400 ATP binding site [chemical binding]; other site 642492011401 Q-loop/lid; other site 642492011402 ABC transporter signature motif; other site 642492011403 Walker B; other site 642492011404 D-loop; other site 642492011405 H-loop/switch region; other site 642492011406 ABC-2 type transporter; Region: ABC2_membrane; cl11417 642492011407 RNA polymerase factor sigma-70; Validated; Region: PRK06811 642492011408 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011409 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 642492011410 DNA binding residues [nucleotide binding] 642492011411 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 642492011412 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 642492011413 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011414 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 642492011415 DNA binding residues [nucleotide binding] 642492011416 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 642492011417 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 642492011418 Helix-turn-helix domains; Region: HTH; cl00088 642492011419 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 642492011420 non-specific DNA binding site [nucleotide binding]; other site 642492011421 salt bridge; other site 642492011422 sequence-specific DNA binding site [nucleotide binding]; other site 642492011423 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 642492011424 AzlC protein; Region: AzlC; cl00570 642492011425 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 642492011426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 642492011427 Family description; Region: UvrD_C_2; cl15862 642492011428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492011429 Helix-turn-helix domains; Region: HTH; cl00088 642492011430 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 642492011431 dimerization interface [polypeptide binding]; other site 642492011432 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492011433 Helix-turn-helix domains; Region: HTH; cl00088 642492011434 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 642492011435 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492011436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492011437 dimer interface [polypeptide binding]; other site 642492011438 putative CheW interface [polypeptide binding]; other site 642492011439 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492011440 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492011441 GTPase RsgA; Reviewed; Region: PRK01889 642492011442 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 642492011443 RNA binding site [nucleotide binding]; other site 642492011444 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 642492011445 GTPase/Zn-binding domain interface [polypeptide binding]; other site 642492011446 GTP/Mg2+ binding site [chemical binding]; other site 642492011447 G4 box; other site 642492011448 G5 box; other site 642492011449 G1 box; other site 642492011450 Switch I region; other site 642492011451 G2 box; other site 642492011452 G3 box; other site 642492011453 Switch II region; other site 642492011454 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492011455 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492011456 ABC transporter; Region: ABC_tran_2; pfam12848 642492011457 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 642492011458 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 642492011459 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 642492011460 nudix motif; other site 642492011461 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 642492011462 nucleotide binding site/active site [active] 642492011463 HIT family signature motif; other site 642492011464 catalytic residue [active] 642492011465 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 642492011466 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492011467 FeS/SAM binding site; other site 642492011468 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 642492011469 active site 642492011470 dimer interface [polypeptide binding]; other site 642492011471 metal binding site [ion binding]; metal-binding site 642492011472 PAS domain; Region: PAS_9; pfam13426 642492011473 PAS fold; Region: PAS_4; pfam08448 642492011474 PAS domain S-box; Region: sensory_box; TIGR00229 642492011475 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 642492011476 putative active site [active] 642492011477 heme pocket [chemical binding]; other site 642492011478 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 642492011479 dimer interface [polypeptide binding]; other site 642492011480 phosphorylation site [posttranslational modification] 642492011481 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 642492011482 ATP binding site [chemical binding]; other site 642492011483 Mg2+ binding site [ion binding]; other site 642492011484 G-X-G motif; other site 642492011485 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 642492011486 Clp amino terminal domain; Region: Clp_N; pfam02861 642492011487 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 642492011488 Walker A motif; other site 642492011489 ATP binding site [chemical binding]; other site 642492011490 Walker B motif; other site 642492011491 arginine finger; other site 642492011492 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 642492011493 Walker A motif; other site 642492011494 ATP binding site [chemical binding]; other site 642492011495 Walker B motif; other site 642492011496 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 642492011497 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 642492011498 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 642492011499 DNA binding residues [nucleotide binding] 642492011500 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 642492011501 Uncharacterized conserved protein [Function unknown]; Region: COG1284 642492011502 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 642492011503 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 642492011504 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492011505 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011506 Coenzyme A binding pocket [chemical binding]; other site 642492011507 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 642492011508 maltose O-acetyltransferase; Provisional; Region: PRK10092 642492011509 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 642492011510 active site 642492011511 substrate binding site [chemical binding]; other site 642492011512 trimer interface [polypeptide binding]; other site 642492011513 CoA binding site [chemical binding]; other site 642492011514 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492011515 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 642492011516 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 642492011517 active site 642492011518 Zn binding site [ion binding]; other site 642492011519 FAD dependent oxidoreductase; Region: DAO; pfam01266 642492011520 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 642492011521 iron-sulfur cluster [ion binding]; other site 642492011522 [2Fe-2S] cluster binding site [ion binding]; other site 642492011523 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 642492011524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492011525 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 642492011526 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 642492011527 active site 642492011528 nucleophile elbow; other site 642492011529 prolyl-tRNA synthetase; Provisional; Region: PRK09194 642492011530 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 642492011531 dimer interface [polypeptide binding]; other site 642492011532 motif 1; other site 642492011533 active site 642492011534 motif 2; other site 642492011535 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 642492011536 putative deacylase active site [active] 642492011537 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 642492011538 active site 642492011539 motif 3; other site 642492011540 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 642492011541 anticodon binding site; other site 642492011542 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 642492011543 Transcriptional regulator [Transcription]; Region: IclR; COG1414 642492011544 Helix-turn-helix domains; Region: HTH; cl00088 642492011545 Bacterial transcriptional regulator; Region: IclR; pfam01614 642492011546 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 642492011547 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 642492011548 NADP binding site [chemical binding]; other site 642492011549 homodimer interface [polypeptide binding]; other site 642492011550 active site 642492011551 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492011552 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 642492011553 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 642492011554 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH_2; cd04602 642492011555 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 642492011556 active site 642492011557 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 642492011558 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 642492011559 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 642492011560 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 642492011561 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 642492011562 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 642492011563 Dimer interface [polypeptide binding]; other site 642492011564 anticodon binding site; other site 642492011565 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 642492011566 homodimer interface [polypeptide binding]; other site 642492011567 motif 1; other site 642492011568 motif 2; other site 642492011569 active site 642492011570 motif 3; other site 642492011571 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 642492011572 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 642492011573 GatB domain; Region: GatB_Yqey; cl11497 642492011574 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 642492011575 Amidase; Region: Amidase; cl11426 642492011576 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 642492011577 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 642492011578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492011579 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 642492011580 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 642492011581 active site 642492011582 dimer interface [polypeptide binding]; other site 642492011583 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 642492011584 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 642492011585 active site 642492011586 FMN binding site [chemical binding]; other site 642492011587 substrate binding site [chemical binding]; other site 642492011588 3Fe-4S cluster binding site [ion binding]; other site 642492011589 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 642492011590 domain interface; other site 642492011591 glutamine synthetase, type I; Region: GlnA; TIGR00653 642492011592 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 642492011593 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 642492011594 ANTAR domain; Region: ANTAR; cl04297 642492011595 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 642492011596 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 642492011597 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 642492011598 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 642492011599 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 642492011600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011601 homodimer interface [polypeptide binding]; other site 642492011602 catalytic residue [active] 642492011603 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 642492011604 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492011605 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 642492011606 Walker A/P-loop; other site 642492011607 ATP binding site [chemical binding]; other site 642492011608 Q-loop/lid; other site 642492011609 ABC transporter signature motif; other site 642492011610 Walker B; other site 642492011611 D-loop; other site 642492011612 H-loop/switch region; other site 642492011613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492011614 DNA-binding site [nucleotide binding]; DNA binding site 642492011615 Winged helix-turn helix; Region: HTH_29; pfam13551 642492011616 Helix-turn-helix domains; Region: HTH; cl00088 642492011617 Helix-turn-helix domains; Region: HTH; cl00088 642492011618 Winged helix-turn helix; Region: HTH_33; pfam13592 642492011619 Integrase core domain; Region: rve; cl01316 642492011620 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 642492011621 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 642492011622 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492011623 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492011624 active site 642492011625 metal binding site [ion binding]; metal-binding site 642492011626 GtrA-like protein; Region: GtrA; cl00971 642492011627 ParB-like partition proteins; Region: parB_part; TIGR00180 642492011628 ParB-like nuclease domain; Region: ParBc; cl02129 642492011629 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 642492011630 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 642492011631 P-loop; other site 642492011632 Magnesium ion binding site [ion binding]; other site 642492011633 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 642492011634 Magnesium ion binding site [ion binding]; other site 642492011635 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 642492011636 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 642492011637 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 642492011638 active site 642492011639 HIGH motif; other site 642492011640 KMSK motif region; other site 642492011641 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 642492011642 tRNA binding surface [nucleotide binding]; other site 642492011643 anticodon binding site; other site 642492011644 ParB-like nuclease domain; Region: ParBc; cl02129 642492011645 ParB-like partition proteins; Region: parB_part; TIGR00180 642492011646 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 642492011647 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 642492011648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492011649 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 642492011650 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 642492011651 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 642492011652 trmE is a tRNA modification GTPase; Region: trmE; cd04164 642492011653 G1 box; other site 642492011654 GTP/Mg2+ binding site [chemical binding]; other site 642492011655 Switch I region; other site 642492011656 G2 box; other site 642492011657 Switch II region; other site 642492011658 G3 box; other site 642492011659 G4 box; other site 642492011660 G5 box; other site 642492011661 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 642492011662 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 642492011663 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 642492011664 G-X-X-G motif; other site 642492011665 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 642492011666 RxxxH motif; other site 642492011667 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 642492011668 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 642492011669 Haemolytic domain; Region: Haemolytic; cl00506 642492011670 Ribonuclease P; Region: Ribonuclease_P; cl00457 642492011671 Ribosomal protein L34; Region: Ribosomal_L34; cl00370