-- dump date 20140619_044609 -- 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 ATP-binding cassette domain of RecF; 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 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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...; 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 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 642492000052 putative active site [active] 642492000053 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 642492000054 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 642492000055 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 642492000056 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 642492000057 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 642492000058 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492000059 catalytic residue [active] 642492000060 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 642492000061 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 642492000062 active site 642492000063 Protein of unknown function (DUF327); Region: DUF327; pfam03885 642492000064 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 642492000065 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 642492000066 Walker A motif; other site 642492000067 ATP binding site [chemical binding]; other site 642492000068 Walker B motif; other site 642492000069 arginine finger; other site 642492000070 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 642492000071 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 642492000072 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 642492000073 S-adenosylmethionine binding site [chemical binding]; other site 642492000074 Predicted methyltransferases [General function prediction only]; Region: COG0313 642492000075 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 642492000076 putative SAM binding site [chemical binding]; other site 642492000077 putative homodimer interface [polypeptide binding]; other site 642492000078 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 642492000079 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 642492000080 dimerization interface [polypeptide binding]; other site 642492000081 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 642492000082 dimer interface [polypeptide binding]; other site 642492000083 phosphorylation site [posttranslational modification] 642492000084 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 642492000085 ATP binding site [chemical binding]; other site 642492000086 Mg2+ binding site [ion binding]; other site 642492000087 G-X-G motif; other site 642492000088 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000089 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 642492000090 active site 642492000091 phosphorylation site [posttranslational modification] 642492000092 intermolecular recognition site; other site 642492000093 dimerization interface [polypeptide binding]; other site 642492000094 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 642492000095 DNA binding site [nucleotide binding] 642492000096 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 642492000097 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 642492000098 putative catalytic site [active] 642492000099 putative metal binding site [ion binding]; other site 642492000100 putative phosphate binding site [ion binding]; other site 642492000101 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 642492000102 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 642492000103 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 642492000104 N- and C-terminal domain interface [polypeptide binding]; other site 642492000105 D-xylulose kinase; Region: XylB; TIGR01312 642492000106 active site 642492000107 MgATP binding site [chemical binding]; other site 642492000108 catalytic site [active] 642492000109 metal binding site [ion binding]; metal-binding site 642492000110 xylulose binding site [chemical binding]; other site 642492000111 homodimer interface [polypeptide binding]; other site 642492000112 xylose isomerase; Provisional; Region: PRK05474 642492000113 xylose isomerase; Region: xylose_isom_A; TIGR02630 642492000114 Helix-turn-helix domain; Region: HTH_20; pfam12840 642492000115 putative DNA binding site [nucleotide binding]; other site 642492000116 putative Zn2+ binding site [ion binding]; other site 642492000117 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 642492000118 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 642492000119 nucleotide binding site [chemical binding]; other site 642492000120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 642492000121 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 642492000122 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492000123 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 642492000124 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492000125 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 642492000126 dimerization interface [polypeptide binding]; other site 642492000127 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 642492000128 dimer interface [polypeptide binding]; other site 642492000129 phosphorylation site [posttranslational modification] 642492000130 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 642492000131 ATP binding site [chemical binding]; other site 642492000132 Mg2+ binding site [ion binding]; other site 642492000133 G-X-G motif; other site 642492000134 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000135 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 642492000136 active site 642492000137 phosphorylation site [posttranslational modification] 642492000138 intermolecular recognition site; other site 642492000139 dimerization interface [polypeptide binding]; other site 642492000140 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 642492000141 DNA binding site [nucleotide binding] 642492000142 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492000143 MarR family; Region: MarR_2; cl17246 642492000144 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 642492000145 FMN-binding domain; Region: FMN_bind; cl01081 642492000146 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492000147 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 642492000148 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 642492000149 endoglucanase; Region: PLN02420 642492000150 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492000151 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492000152 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492000153 DNA binding site [nucleotide binding] 642492000154 domain linker motif; other site 642492000155 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 642492000156 dimerization interface [polypeptide binding]; other site 642492000157 ligand binding site [chemical binding]; other site 642492000158 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 642492000159 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 642492000160 active site turn [active] 642492000161 phosphorylation site [posttranslational modification] 642492000162 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 642492000163 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 642492000164 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 642492000165 substrate binding [chemical binding]; other site 642492000166 active site 642492000167 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 642492000168 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000169 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 642492000170 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492000171 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 642492000172 substrate binding pocket [chemical binding]; other site 642492000173 membrane-bound complex binding site; other site 642492000174 hinge residues; other site 642492000175 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 642492000176 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000177 dimer interface [polypeptide binding]; other site 642492000178 conserved gate region; other site 642492000179 putative PBP binding loops; other site 642492000180 ABC-ATPase subunit interface; other site 642492000181 sulfate transport protein; Provisional; Region: cysT; CHL00187 642492000182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000183 dimer interface [polypeptide binding]; other site 642492000184 conserved gate region; other site 642492000185 putative PBP binding loops; other site 642492000186 ABC-ATPase subunit interface; other site 642492000187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492000188 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 642492000189 Walker A/P-loop; other site 642492000190 ATP binding site [chemical binding]; other site 642492000191 Q-loop/lid; other site 642492000192 ABC transporter signature motif; other site 642492000193 Walker B; other site 642492000194 D-loop; other site 642492000195 H-loop/switch region; other site 642492000196 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 642492000197 L-aspartate oxidase; Provisional; Region: PRK06175 642492000198 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 642492000199 Ferredoxin [Energy production and conversion]; Region: COG1146 642492000200 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 642492000201 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 642492000202 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 642492000203 Active Sites [active] 642492000204 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 642492000205 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 642492000206 G1 box; other site 642492000207 GTP/Mg2+ binding site [chemical binding]; other site 642492000208 G2 box; other site 642492000209 Switch I region; other site 642492000210 G3 box; other site 642492000211 Switch II region; other site 642492000212 G4 box; other site 642492000213 G5 box; other site 642492000214 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 642492000215 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 642492000216 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492000217 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 642492000218 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492000219 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492000220 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492000221 Walker A/P-loop; other site 642492000222 ATP binding site [chemical binding]; other site 642492000223 Q-loop/lid; other site 642492000224 ABC transporter signature motif; other site 642492000225 Walker B; other site 642492000226 D-loop; other site 642492000227 H-loop/switch region; other site 642492000228 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492000229 Tropomyosin like; Region: Tropomyosin_1; pfam12718 642492000230 GDP/GTP exchange factor Sec2p; Region: Sec2p; pfam06428 642492000231 FtsX-like permease family; Region: FtsX; pfam02687 642492000232 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492000233 FtsX-like permease family; Region: FtsX; pfam02687 642492000234 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492000235 Coenzyme A binding pocket [chemical binding]; other site 642492000236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492000237 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492000238 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 642492000239 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 642492000240 von Willebrand factor; Region: vWF_A; pfam12450 642492000241 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 642492000242 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 642492000243 metal ion-dependent adhesion site (MIDAS); other site 642492000244 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 642492000245 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492000246 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492000247 Walker A/P-loop; other site 642492000248 ATP binding site [chemical binding]; other site 642492000249 Q-loop/lid; other site 642492000250 ABC transporter signature motif; other site 642492000251 Walker B; other site 642492000252 D-loop; other site 642492000253 H-loop/switch region; other site 642492000254 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492000255 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000256 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 642492000257 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 642492000258 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 642492000259 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492000261 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 642492000262 Walker A/P-loop; other site 642492000263 ATP binding site [chemical binding]; other site 642492000264 Q-loop/lid; other site 642492000265 ABC transporter signature motif; other site 642492000266 Walker B; other site 642492000267 D-loop; other site 642492000268 H-loop/switch region; other site 642492000269 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 642492000270 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 642492000271 CAAX protease self-immunity; Region: Abi; pfam02517 642492000272 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 642492000273 Double zinc ribbon; Region: DZR; pfam12773 642492000274 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 642492000275 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 642492000276 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 642492000277 DNA binding residues [nucleotide binding] 642492000278 dimer interface [polypeptide binding]; other site 642492000279 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 642492000280 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 642492000281 nudix motif; other site 642492000282 SWIM zinc finger; Region: SWIM; pfam04434 642492000283 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 642492000284 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 642492000285 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 642492000286 ATP binding site [chemical binding]; other site 642492000287 putative Mg++ binding site [ion binding]; other site 642492000288 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 642492000289 nucleotide binding region [chemical binding]; other site 642492000290 ATP-binding site [chemical binding]; other site 642492000291 RibD C-terminal domain; Region: RibD_C; cl17279 642492000292 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 642492000293 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492000294 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 642492000295 active site 642492000296 phosphorylation site [posttranslational modification] 642492000297 intermolecular recognition site; other site 642492000298 dimerization interface [polypeptide binding]; other site 642492000299 LytTr DNA-binding domain; Region: LytTR; smart00850 642492000300 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492000301 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 642492000302 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 642492000303 putative active site [active] 642492000304 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492000305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492000306 Walker A/P-loop; other site 642492000307 ATP binding site [chemical binding]; other site 642492000308 Q-loop/lid; other site 642492000309 ABC transporter signature motif; other site 642492000310 Walker B; other site 642492000311 D-loop; other site 642492000312 H-loop/switch region; other site 642492000313 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 642492000314 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 642492000315 HlyD family secretion protein; Region: HlyD_3; pfam13437 642492000316 TraB family; Region: TraB; pfam01963 642492000317 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 642492000318 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 642492000319 FeS/SAM binding site; other site 642492000320 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 642492000321 TPR repeat; Region: TPR_11; pfam13414 642492000322 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 642492000323 binding surface 642492000324 TPR motif; other site 642492000325 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 642492000326 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 642492000327 FeS/SAM binding site; other site 642492000328 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 642492000329 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 642492000330 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 642492000331 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 642492000332 Walker A/P-loop; other site 642492000333 ATP binding site [chemical binding]; other site 642492000334 Q-loop/lid; other site 642492000335 ABC transporter signature motif; other site 642492000336 Walker B; other site 642492000337 D-loop; other site 642492000338 H-loop/switch region; other site 642492000339 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 642492000340 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 642492000341 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 642492000342 Walker A/P-loop; other site 642492000343 ATP binding site [chemical binding]; other site 642492000344 Q-loop/lid; other site 642492000345 ABC transporter signature motif; other site 642492000346 Walker B; other site 642492000347 D-loop; other site 642492000348 H-loop/switch region; other site 642492000349 hypothetical protein; Provisional; Region: PRK13661 642492000350 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 642492000351 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 642492000352 ATP binding site [chemical binding]; other site 642492000353 putative Mg++ binding site [ion binding]; other site 642492000354 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 642492000355 nucleotide binding region [chemical binding]; other site 642492000356 ATP-binding site [chemical binding]; other site 642492000357 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 642492000358 HRDC domain; Region: HRDC; pfam00570 642492000359 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 642492000360 putative homotetramer interface [polypeptide binding]; other site 642492000361 putative homodimer interface [polypeptide binding]; other site 642492000362 putative allosteric switch controlling residues; other site 642492000363 putative metal binding site [ion binding]; other site 642492000364 putative homodimer-homodimer interface [polypeptide binding]; other site 642492000365 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000366 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 642492000367 active site 642492000368 phosphorylation site [posttranslational modification] 642492000369 intermolecular recognition site; other site 642492000370 dimerization interface [polypeptide binding]; other site 642492000371 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 642492000372 DNA binding site [nucleotide binding] 642492000373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492000374 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 642492000375 dimerization interface [polypeptide binding]; other site 642492000376 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 642492000377 dimer interface [polypeptide binding]; other site 642492000378 phosphorylation site [posttranslational modification] 642492000379 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 642492000380 ATP binding site [chemical binding]; other site 642492000381 Mg2+ binding site [ion binding]; other site 642492000382 G-X-G motif; other site 642492000383 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 642492000384 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 642492000385 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 642492000386 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 642492000387 active site 642492000388 Zn binding site [ion binding]; other site 642492000389 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492000390 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 642492000391 active site 642492000392 Ca binding site [ion binding]; other site 642492000393 catalytic site [active] 642492000394 Aamy_C domain; Region: Aamy_C; smart00632 642492000395 Carbohydrate binding domain (family 25); Region: CBM_25; pfam03423 642492000396 2-isopropylmalate synthase; Validated; Region: PRK00915 642492000397 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 642492000398 active site 642492000399 catalytic residues [active] 642492000400 metal binding site [ion binding]; metal-binding site 642492000401 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 642492000402 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 642492000403 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 642492000404 putative active site [active] 642492000405 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492000406 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492000407 Walker A/P-loop; other site 642492000408 ATP binding site [chemical binding]; other site 642492000409 Q-loop/lid; other site 642492000410 ABC transporter signature motif; other site 642492000411 Walker B; other site 642492000412 D-loop; other site 642492000413 H-loop/switch region; other site 642492000414 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492000415 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 642492000416 active site 642492000417 phosphorylation site [posttranslational modification] 642492000418 intermolecular recognition site; other site 642492000419 dimerization interface [polypeptide binding]; other site 642492000420 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 642492000421 DNA binding site [nucleotide binding] 642492000422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492000423 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 642492000424 dimerization interface [polypeptide binding]; other site 642492000425 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 642492000426 dimer interface [polypeptide binding]; other site 642492000427 phosphorylation site [posttranslational modification] 642492000428 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 642492000429 ATP binding site [chemical binding]; other site 642492000430 Mg2+ binding site [ion binding]; other site 642492000431 G-X-G motif; other site 642492000432 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 642492000433 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 642492000434 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 642492000435 ABC-2 type transporter; Region: ABC2_membrane; cl17235 642492000436 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492000437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492000438 Walker A/P-loop; other site 642492000439 ATP binding site [chemical binding]; other site 642492000440 Q-loop/lid; other site 642492000441 ABC transporter signature motif; other site 642492000442 Walker B; other site 642492000443 D-loop; other site 642492000444 H-loop/switch region; other site 642492000445 Predicted transcriptional regulators [Transcription]; Region: COG1695 642492000446 Transcriptional regulator PadR-like family; Region: PadR; cl17335 642492000447 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492000448 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492000449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492000450 Walker A/P-loop; other site 642492000451 ATP binding site [chemical binding]; other site 642492000452 Q-loop/lid; other site 642492000453 ABC transporter signature motif; other site 642492000454 Walker B; other site 642492000455 D-loop; other site 642492000456 H-loop/switch region; other site 642492000457 Protein of unknown function DUF58; Region: DUF58; pfam01882 642492000458 MoxR-like ATPases [General function prediction only]; Region: COG0714 642492000459 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 642492000460 Walker A motif; other site 642492000461 ATP binding site [chemical binding]; other site 642492000462 Walker B motif; other site 642492000463 arginine finger; other site 642492000464 Predicted transcriptional regulators [Transcription]; Region: COG1695 642492000465 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 642492000466 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 642492000467 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 642492000468 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 642492000469 active site 642492000470 dimer interface [polypeptide binding]; other site 642492000471 motif 1; other site 642492000472 motif 2; other site 642492000473 motif 3; other site 642492000474 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 642492000475 anticodon binding site; other site 642492000476 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492000477 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000478 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 642492000479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 642492000480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492000481 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492000482 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492000483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 642492000484 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 642492000485 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492000486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492000487 DNA-binding site [nucleotide binding]; DNA binding site 642492000488 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492000489 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492000490 Walker A/P-loop; other site 642492000491 ATP binding site [chemical binding]; other site 642492000492 Q-loop/lid; other site 642492000493 ABC transporter signature motif; other site 642492000494 Walker B; other site 642492000495 D-loop; other site 642492000496 H-loop/switch region; other site 642492000497 Protein of unknown function (DUF454); Region: DUF454; cl01063 642492000498 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 642492000499 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 642492000500 tetramer interface [polypeptide binding]; other site 642492000501 heme binding pocket [chemical binding]; other site 642492000502 NADPH binding site [chemical binding]; other site 642492000503 MoxR-like ATPases [General function prediction only]; Region: COG0714 642492000504 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 642492000505 Walker A motif; other site 642492000506 ATP binding site [chemical binding]; other site 642492000507 Walker B motif; other site 642492000508 arginine finger; other site 642492000509 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 642492000510 Protein of unknown function DUF58; Region: DUF58; pfam01882 642492000511 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 642492000512 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 642492000513 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 642492000514 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492000515 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 642492000516 putative ADP-binding pocket [chemical binding]; other site 642492000517 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492000518 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492000519 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 642492000520 dimerization interface [polypeptide binding]; other site 642492000521 DJ-1 family protein; Region: not_thiJ; TIGR01383 642492000522 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 642492000523 conserved cys residue [active] 642492000524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492000525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492000526 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 642492000527 dimerization interface [polypeptide binding]; other site 642492000528 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 642492000529 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 642492000530 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 642492000531 homodimer interface [polypeptide binding]; other site 642492000532 substrate-cofactor binding pocket; other site 642492000533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492000534 catalytic residue [active] 642492000535 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 642492000536 DNA-binding site [nucleotide binding]; DNA binding site 642492000537 RNA-binding motif; other site 642492000538 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 642492000539 DNA-binding site [nucleotide binding]; DNA binding site 642492000540 RNA-binding motif; other site 642492000541 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 642492000542 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 642492000543 intersubunit interface [polypeptide binding]; other site 642492000544 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492000545 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492000546 Walker A/P-loop; other site 642492000547 ATP binding site [chemical binding]; other site 642492000548 Q-loop/lid; other site 642492000549 ABC transporter signature motif; other site 642492000550 Walker B; other site 642492000551 D-loop; other site 642492000552 H-loop/switch region; other site 642492000553 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 642492000554 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 642492000555 ABC-ATPase subunit interface; other site 642492000556 dimer interface [polypeptide binding]; other site 642492000557 putative PBP binding regions; other site 642492000558 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492000559 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000560 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 642492000561 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 642492000562 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492000563 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 642492000564 DNA binding residues [nucleotide binding] 642492000565 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 642492000566 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000567 Predicted transcriptional regulators [Transcription]; Region: COG1733 642492000568 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 642492000569 dimerization interface [polypeptide binding]; other site 642492000570 putative DNA binding site [nucleotide binding]; other site 642492000571 putative Zn2+ binding site [ion binding]; other site 642492000572 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 642492000573 Nitroreductase family; Region: Nitroreductase; pfam00881 642492000574 FMN binding site [chemical binding]; other site 642492000575 dimer interface [polypeptide binding]; other site 642492000576 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492000577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000578 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492000579 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000581 putative PBP binding loops; other site 642492000582 dimer interface [polypeptide binding]; other site 642492000583 ABC-ATPase subunit interface; other site 642492000584 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492000585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000586 dimer interface [polypeptide binding]; other site 642492000587 conserved gate region; other site 642492000588 putative PBP binding loops; other site 642492000589 ABC-ATPase subunit interface; other site 642492000590 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 642492000591 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492000592 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 642492000593 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 642492000594 active site 642492000595 catalytic site [active] 642492000596 metal binding site [ion binding]; metal-binding site 642492000597 dimer interface [polypeptide binding]; other site 642492000598 exosortase K; Region: exosort_XrtK; TIGR04287 642492000599 MSEP-CTERM protein; Region: MSEP-CTERM; TIGR04286 642492000600 Domain of unknown function (DUF373); Region: DUF373; cl12079 642492000601 Lysis protein; Region: Lysis_col; pfam02402 642492000602 LemA family; Region: LemA; cl00742 642492000603 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 642492000604 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492000605 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492000606 dimer interface [polypeptide binding]; other site 642492000607 putative CheW interface [polypeptide binding]; other site 642492000608 Uncharacterized conserved protein [Function unknown]; Region: COG2454 642492000609 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 642492000610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492000611 DNA-binding site [nucleotide binding]; DNA binding site 642492000612 TrkA-C domain; Region: TrkA_C; pfam02080 642492000613 putative transposase OrfB; Reviewed; Region: PHA02517 642492000614 HTH-like domain; Region: HTH_21; pfam13276 642492000615 Integrase core domain; Region: rve; pfam00665 642492000616 Integrase core domain; Region: rve_3; cl15866 642492000617 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492000618 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492000619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492000620 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492000621 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 642492000622 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 642492000623 Walker A/P-loop; other site 642492000624 ATP binding site [chemical binding]; other site 642492000625 Q-loop/lid; other site 642492000626 ABC transporter signature motif; other site 642492000627 Walker B; other site 642492000628 D-loop; other site 642492000629 H-loop/switch region; other site 642492000630 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 642492000631 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492000632 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000633 dimer interface [polypeptide binding]; other site 642492000634 conserved gate region; other site 642492000635 putative PBP binding loops; other site 642492000636 ABC-ATPase subunit interface; other site 642492000637 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 642492000638 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 642492000639 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492000640 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492000641 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 642492000642 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 642492000643 HlyD family secretion protein; Region: HlyD_3; pfam13437 642492000644 FtsX-like permease family; Region: FtsX; pfam02687 642492000645 FtsX-like permease family; Region: FtsX; pfam02687 642492000646 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492000647 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492000648 Walker A/P-loop; other site 642492000649 ATP binding site [chemical binding]; other site 642492000650 Q-loop/lid; other site 642492000651 ABC transporter signature motif; other site 642492000652 Walker B; other site 642492000653 D-loop; other site 642492000654 H-loop/switch region; other site 642492000655 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 642492000656 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492000657 DNA binding residues [nucleotide binding] 642492000658 drug binding residues [chemical binding]; other site 642492000659 dimer interface [polypeptide binding]; other site 642492000660 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 642492000661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492000662 Transposase; Region: HTH_Tnp_1; pfam01527 642492000663 putative transposase OrfB; Reviewed; Region: PHA02517 642492000664 HTH-like domain; Region: HTH_21; pfam13276 642492000665 Integrase core domain; Region: rve; pfam00665 642492000666 Integrase core domain; Region: rve_3; pfam13683 642492000667 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 642492000668 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 642492000669 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000670 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000671 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 642492000672 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 642492000673 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492000674 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 642492000675 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 642492000676 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 642492000677 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 642492000678 putative active site [active] 642492000679 Predicted transcriptional regulator [Transcription]; Region: COG2378 642492000680 WYL domain; Region: WYL; pfam13280 642492000681 Nucleolar RNA-binding protein, Nop10p family; Region: Nop10p; cl00977 642492000682 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492000683 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492000684 DNA binding site [nucleotide binding] 642492000685 domain linker motif; other site 642492000686 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 642492000687 dimerization interface [polypeptide binding]; other site 642492000688 ligand binding site [chemical binding]; other site 642492000689 sodium binding site [ion binding]; other site 642492000690 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 642492000691 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492000692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492000693 dimer interface [polypeptide binding]; other site 642492000694 putative CheW interface [polypeptide binding]; other site 642492000695 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492000696 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492000697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000698 dimer interface [polypeptide binding]; other site 642492000699 conserved gate region; other site 642492000700 putative PBP binding loops; other site 642492000701 ABC-ATPase subunit interface; other site 642492000702 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492000703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000704 dimer interface [polypeptide binding]; other site 642492000705 conserved gate region; other site 642492000706 putative PBP binding loops; other site 642492000707 ABC-ATPase subunit interface; other site 642492000708 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 642492000709 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 642492000710 active site 642492000711 homodimer interface [polypeptide binding]; other site 642492000712 catalytic site [active] 642492000713 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492000714 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 642492000715 putative substrate binding site [chemical binding]; other site 642492000716 putative ATP binding site [chemical binding]; other site 642492000717 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 642492000718 Helix-turn-helix domain; Region: HTH_18; pfam12833 642492000719 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 642492000720 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492000721 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 642492000722 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 642492000723 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 642492000724 TrkA-N domain; Region: TrkA_N; pfam02254 642492000725 TrkA-C domain; Region: TrkA_C; pfam02080 642492000726 TrkA-N domain; Region: TrkA_N; pfam02254 642492000727 TrkA-C domain; Region: TrkA_C; pfam02080 642492000728 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 642492000729 Family description; Region: UvrD_C_2; pfam13538 642492000730 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 642492000731 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 642492000732 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 642492000733 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 642492000734 Catalytic site [active] 642492000735 Z1 domain; Region: Z1; pfam10593 642492000736 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 642492000737 cofactor binding site; other site 642492000738 DNA binding site [nucleotide binding] 642492000739 substrate interaction site [chemical binding]; other site 642492000740 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 642492000741 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 642492000742 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 642492000743 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 642492000744 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 642492000745 cofactor binding site; other site 642492000746 DNA binding site [nucleotide binding] 642492000747 substrate interaction site [chemical binding]; other site 642492000748 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 642492000749 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 642492000750 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 642492000751 active site 642492000752 8-oxo-dGMP binding site [chemical binding]; other site 642492000753 nudix motif; other site 642492000754 metal binding site [ion binding]; metal-binding site 642492000755 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 642492000756 PLD-like domain; Region: PLDc_2; pfam13091 642492000757 putative homodimer interface [polypeptide binding]; other site 642492000758 putative active site [active] 642492000759 catalytic site [active] 642492000760 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 642492000761 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 642492000762 ATP binding site [chemical binding]; other site 642492000763 putative Mg++ binding site [ion binding]; other site 642492000764 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 642492000765 nucleotide binding region [chemical binding]; other site 642492000766 ATP-binding site [chemical binding]; other site 642492000767 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 642492000768 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 642492000769 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 642492000770 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 642492000771 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 642492000772 DNA binding residues [nucleotide binding] 642492000773 dimer interface [polypeptide binding]; other site 642492000774 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 642492000775 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 642492000776 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492000777 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 642492000778 dimerization interface [polypeptide binding]; other site 642492000779 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492000780 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000781 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492000782 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492000783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000784 dimer interface [polypeptide binding]; other site 642492000785 conserved gate region; other site 642492000786 putative PBP binding loops; other site 642492000787 ABC-ATPase subunit interface; other site 642492000788 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492000789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000790 dimer interface [polypeptide binding]; other site 642492000791 conserved gate region; other site 642492000792 putative PBP binding loops; other site 642492000793 ABC-ATPase subunit interface; other site 642492000794 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 642492000795 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492000796 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 642492000797 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 642492000798 Hemerythrin; Region: Hemerythrin; cd12107 642492000799 Fe binding site [ion binding]; other site 642492000800 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 642492000801 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 642492000802 Metal-binding active site; metal-binding site 642492000803 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 642492000804 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 642492000805 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 642492000806 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 642492000807 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 642492000808 fructuronate transporter; Provisional; Region: PRK10034; cl15264 642492000809 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 642492000810 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 642492000811 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 642492000812 MOFRL family; Region: MOFRL; pfam05161 642492000813 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 642492000814 Mrr N-terminal domain; Region: Mrr_N; pfam14338 642492000815 Restriction endonuclease; Region: Mrr_cat; pfam04471 642492000816 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 642492000817 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 642492000818 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492000819 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492000820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492000821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 642492000822 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 642492000823 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492000824 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492000825 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 642492000826 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492000827 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492000828 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 642492000829 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492000830 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492000831 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 642492000832 IMP binding site; other site 642492000833 dimer interface [polypeptide binding]; other site 642492000834 interdomain contacts; other site 642492000835 partial ornithine binding site; other site 642492000836 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 642492000837 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 642492000838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492000839 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 642492000840 Low molecular weight phosphatase family; Region: LMWPc; cd00115 642492000841 active site 642492000842 CAAX protease self-immunity; Region: Abi; pfam02517 642492000843 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492000844 LytTr DNA-binding domain; Region: LytTR; smart00850 642492000845 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 642492000846 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 642492000847 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 642492000848 dimerization interface [polypeptide binding]; other site 642492000849 DPS ferroxidase diiron center [ion binding]; other site 642492000850 ion pore; other site 642492000851 ferric uptake regulator; Provisional; Region: fur; PRK09462 642492000852 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492000853 metal binding site 2 [ion binding]; metal-binding site 642492000854 putative DNA binding helix; other site 642492000855 metal binding site 1 [ion binding]; metal-binding site 642492000856 dimer interface [polypeptide binding]; other site 642492000857 structural Zn2+ binding site [ion binding]; other site 642492000858 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 642492000859 active site 642492000860 CotH protein; Region: CotH; pfam08757 642492000861 CotH protein; Region: CotH; pfam08757 642492000862 CotH protein; Region: CotH; pfam08757 642492000863 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 642492000864 YvrJ protein family; Region: YvrJ; pfam12841 642492000865 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 642492000866 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 642492000867 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 642492000868 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 642492000869 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 642492000870 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 642492000871 TrkA-N domain; Region: TrkA_N; pfam02254 642492000872 TrkA-C domain; Region: TrkA_C; pfam02080 642492000873 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 642492000874 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 642492000875 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 642492000876 Ligand Binding Site [chemical binding]; other site 642492000877 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 642492000878 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 642492000879 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 642492000880 SPFH domain / Band 7 family; Region: Band_7; pfam01145 642492000881 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 642492000882 Cupin domain; Region: Cupin_2; pfam07883 642492000883 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492000884 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 642492000885 cyanate hydratase; Validated; Region: PRK02866 642492000886 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 642492000887 non-specific DNA binding site [nucleotide binding]; other site 642492000888 salt bridge; other site 642492000889 sequence-specific DNA binding site [nucleotide binding]; other site 642492000890 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 642492000891 oligomer interface [polypeptide binding]; other site 642492000892 active site 642492000893 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 642492000894 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 642492000895 Double zinc ribbon; Region: DZR; pfam12773 642492000896 Double zinc ribbon; Region: DZR; pfam12773 642492000897 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 642492000898 Double zinc ribbon; Region: DZR; pfam12773 642492000899 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492000900 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492000901 DNA binding site [nucleotide binding] 642492000902 domain linker motif; other site 642492000903 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 642492000904 dimerization interface [polypeptide binding]; other site 642492000905 ligand binding site [chemical binding]; other site 642492000906 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 642492000907 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492000908 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000909 dimer interface [polypeptide binding]; other site 642492000910 conserved gate region; other site 642492000911 putative PBP binding loops; other site 642492000912 ABC-ATPase subunit interface; other site 642492000913 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492000914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492000915 dimer interface [polypeptide binding]; other site 642492000916 conserved gate region; other site 642492000917 putative PBP binding loops; other site 642492000918 ABC-ATPase subunit interface; other site 642492000919 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 642492000920 maltodextrin glucosidase; Provisional; Region: PRK10785 642492000921 homodimer interface [polypeptide binding]; other site 642492000922 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 642492000923 active site 642492000924 homodimer interface [polypeptide binding]; other site 642492000925 catalytic site [active] 642492000926 Methyltransferase domain; Region: Methyltransf_23; pfam13489 642492000927 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 642492000928 S-adenosylmethionine binding site [chemical binding]; other site 642492000929 Uncharacterized conserved protein [Function unknown]; Region: COG1434 642492000930 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 642492000931 putative active site [active] 642492000932 Protein of unknown function (DUF503); Region: DUF503; pfam04456 642492000933 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 642492000934 amidase catalytic site [active] 642492000935 Zn binding residues [ion binding]; other site 642492000936 substrate binding site [chemical binding]; other site 642492000937 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 642492000938 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 642492000939 S-adenosylmethionine binding site [chemical binding]; other site 642492000940 VanZ like family; Region: VanZ; pfam04892 642492000941 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 642492000942 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 642492000943 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 642492000944 active site turn [active] 642492000945 phosphorylation site [posttranslational modification] 642492000946 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 642492000947 HPr interaction site; other site 642492000948 glycerol kinase (GK) interaction site [polypeptide binding]; other site 642492000949 active site 642492000950 phosphorylation site [posttranslational modification] 642492000951 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492000952 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 642492000953 hypothetical protein; Provisional; Region: PRK11770 642492000954 Domain of unknown function (DUF307); Region: DUF307; pfam03733 642492000955 Domain of unknown function (DUF307); Region: DUF307; pfam03733 642492000956 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492000957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492000958 Penicillinase repressor; Region: Pencillinase_R; pfam03965 642492000959 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 642492000960 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492000961 MarR family; Region: MarR_2; pfam12802 642492000962 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 642492000963 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 642492000964 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000965 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 642492000966 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 642492000967 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 642492000968 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 642492000969 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000970 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492000971 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 642492000972 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 642492000973 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 642492000974 macrophage migration inhibitory factor-like protein; Provisional; Region: PTZ00450 642492000975 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 642492000976 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 642492000977 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492000978 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 642492000979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 642492000980 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 642492000981 catalytic residues [active] 642492000982 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 642492000983 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 642492000984 amidohydrolase; Region: amidohydrolases; TIGR01891 642492000985 metal binding site [ion binding]; metal-binding site 642492000986 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492000987 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 642492000988 ligand binding site [chemical binding]; other site 642492000989 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 642492000990 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 642492000991 Walker A/P-loop; other site 642492000992 ATP binding site [chemical binding]; other site 642492000993 Q-loop/lid; other site 642492000994 ABC transporter signature motif; other site 642492000995 Walker B; other site 642492000996 D-loop; other site 642492000997 H-loop/switch region; other site 642492000998 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 642492000999 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 642492001000 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492001001 TM-ABC transporter signature motif; other site 642492001002 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492001003 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 642492001004 TM-ABC transporter signature motif; other site 642492001005 adenosine deaminase; Provisional; Region: PRK09358 642492001006 active site 642492001007 YARHG domain; Region: YARHG; pfam13308 642492001008 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 642492001009 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 642492001010 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 642492001011 ligand binding site [chemical binding]; other site 642492001012 flexible hinge region; other site 642492001013 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 642492001014 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 642492001015 active site 642492001016 catalytic tetrad [active] 642492001017 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492001018 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492001019 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492001020 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 642492001021 putative substrate translocation pore; other site 642492001022 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 642492001023 biotin synthase; Region: bioB; TIGR00433 642492001024 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 642492001025 FeS/SAM binding site; other site 642492001026 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 642492001027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492001028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492001029 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 642492001030 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 642492001031 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 642492001032 Family description; Region: ACT_7; pfam13840 642492001033 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 642492001034 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 642492001035 active site 642492001036 motif I; other site 642492001037 motif II; other site 642492001038 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 642492001039 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492001040 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 642492001041 active site 642492001042 phosphorylation site [posttranslational modification] 642492001043 intermolecular recognition site; other site 642492001044 dimerization interface [polypeptide binding]; other site 642492001045 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 642492001046 DNA binding site [nucleotide binding] 642492001047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001048 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 642492001049 dimer interface [polypeptide binding]; other site 642492001050 phosphorylation site [posttranslational modification] 642492001051 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 642492001052 ATP binding site [chemical binding]; other site 642492001053 Mg2+ binding site [ion binding]; other site 642492001054 G-X-G motif; other site 642492001055 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492001056 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492001057 Walker A/P-loop; other site 642492001058 ATP binding site [chemical binding]; other site 642492001059 Q-loop/lid; other site 642492001060 ABC transporter signature motif; other site 642492001061 Walker B; other site 642492001062 D-loop; other site 642492001063 H-loop/switch region; other site 642492001064 FtsX-like permease family; Region: FtsX; pfam02687 642492001065 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492001066 phytoene desaturase; Region: crtI_fam; TIGR02734 642492001067 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 642492001068 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492001069 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492001070 putative active site [active] 642492001071 putative metal binding site [ion binding]; other site 642492001072 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 642492001073 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 642492001074 ligand binding site [chemical binding]; other site 642492001075 flexible hinge region; other site 642492001076 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 642492001077 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001078 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 642492001079 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001080 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 642492001081 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 642492001082 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 642492001083 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 642492001084 intersubunit interface [polypeptide binding]; other site 642492001085 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 642492001086 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 642492001087 ABC-ATPase subunit interface; other site 642492001088 dimer interface [polypeptide binding]; other site 642492001089 putative PBP binding regions; other site 642492001090 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492001091 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 642492001092 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 642492001093 Helix-turn-helix domain; Region: HTH_18; pfam12833 642492001094 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001095 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 642492001096 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 642492001097 putative dimer interface [polypeptide binding]; other site 642492001098 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492001099 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492001100 putative active site [active] 642492001101 putative metal binding site [ion binding]; other site 642492001102 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 642492001103 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 642492001104 Walker A/P-loop; other site 642492001105 ATP binding site [chemical binding]; other site 642492001106 Q-loop/lid; other site 642492001107 ABC transporter signature motif; other site 642492001108 Walker B; other site 642492001109 D-loop; other site 642492001110 H-loop/switch region; other site 642492001111 NIL domain; Region: NIL; pfam09383 642492001112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001113 dimer interface [polypeptide binding]; other site 642492001114 conserved gate region; other site 642492001115 ABC-ATPase subunit interface; other site 642492001116 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 642492001117 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 642492001118 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 642492001119 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 642492001120 metal binding site [ion binding]; metal-binding site 642492001121 Methyltransferase domain; Region: Methyltransf_31; pfam13847 642492001122 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 642492001123 S-adenosylmethionine binding site [chemical binding]; other site 642492001124 Methyltransferase domain; Region: Methyltransf_23; pfam13489 642492001125 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 642492001126 S-adenosylmethionine binding site [chemical binding]; other site 642492001127 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 642492001128 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 642492001129 metal binding site [ion binding]; metal-binding site 642492001130 dimer interface [polypeptide binding]; other site 642492001131 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 642492001132 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 642492001133 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 642492001134 DNA binding site [nucleotide binding] 642492001135 catalytic residue [active] 642492001136 formamidopyrimidine-DNA glycosylase (fpg); Region: fpg; TIGR00577 642492001137 H2TH interface [polypeptide binding]; other site 642492001138 putative catalytic residues [active] 642492001139 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 642492001140 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492001141 MarR family; Region: MarR; pfam01047 642492001142 MarR family; Region: MarR_2; cl17246 642492001143 Pirin-related protein [General function prediction only]; Region: COG1741 642492001144 Pirin; Region: Pirin; pfam02678 642492001145 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 642492001146 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 642492001147 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 642492001148 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 642492001149 DNA binding residues [nucleotide binding] 642492001150 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 642492001151 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492001152 DNA binding residues [nucleotide binding] 642492001153 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 642492001154 Part of AAA domain; Region: AAA_19; pfam13245 642492001155 PhoH-like protein; Region: PhoH; cl17668 642492001156 Family description; Region: UvrD_C_2; pfam13538 642492001157 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 642492001158 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 642492001159 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 642492001160 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 642492001161 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 642492001162 active site 642492001163 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 642492001164 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 642492001165 active site 642492001166 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 642492001167 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 642492001168 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 642492001169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492001170 Coenzyme A binding pocket [chemical binding]; other site 642492001171 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 642492001172 Domain of unknown function DUF; Region: DUF204; pfam02659 642492001173 Domain of unknown function DUF; Region: DUF204; pfam02659 642492001174 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492001175 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 642492001176 active site 642492001177 phosphorylation site [posttranslational modification] 642492001178 intermolecular recognition site; other site 642492001179 dimerization interface [polypeptide binding]; other site 642492001180 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 642492001181 DNA binding site [nucleotide binding] 642492001182 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001183 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 642492001184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001185 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 642492001186 ATP binding site [chemical binding]; other site 642492001187 Mg2+ binding site [ion binding]; other site 642492001188 G-X-G motif; other site 642492001189 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492001190 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492001191 Walker A/P-loop; other site 642492001192 ATP binding site [chemical binding]; other site 642492001193 Q-loop/lid; other site 642492001194 ABC transporter signature motif; other site 642492001195 Walker B; other site 642492001196 D-loop; other site 642492001197 H-loop/switch region; other site 642492001198 FtsX-like permease family; Region: FtsX; pfam02687 642492001199 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 642492001200 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 642492001201 DNA binding residues [nucleotide binding] 642492001202 dimerization interface [polypeptide binding]; other site 642492001203 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 642492001204 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 642492001205 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 642492001206 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 642492001207 urea carboxylase; Region: urea_carbox; TIGR02712 642492001208 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492001209 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492001210 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 642492001211 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 642492001212 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 642492001213 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 642492001214 carboxyltransferase (CT) interaction site; other site 642492001215 biotinylation site [posttranslational modification]; other site 642492001216 allophanate hydrolase; Provisional; Region: PRK08186 642492001217 Amidase; Region: Amidase; cl11426 642492001218 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 642492001219 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001220 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 642492001221 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001222 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 642492001223 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 642492001224 substrate binding pocket [chemical binding]; other site 642492001225 membrane-bound complex binding site; other site 642492001226 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492001227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001228 dimer interface [polypeptide binding]; other site 642492001229 conserved gate region; other site 642492001230 putative PBP binding loops; other site 642492001231 ABC-ATPase subunit interface; other site 642492001232 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492001233 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 642492001234 Walker A/P-loop; other site 642492001235 ATP binding site [chemical binding]; other site 642492001236 Q-loop/lid; other site 642492001237 ABC transporter signature motif; other site 642492001238 Walker B; other site 642492001239 D-loop; other site 642492001240 H-loop/switch region; other site 642492001241 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492001242 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 642492001243 active site 642492001244 multimer interface [polypeptide binding]; other site 642492001245 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 642492001246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492001247 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 642492001248 DNA binding residues [nucleotide binding] 642492001249 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 642492001250 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 642492001251 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 642492001252 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 642492001253 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492001254 PBP superfamily domain; Region: PBP_like; pfam12727 642492001255 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 642492001256 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492001257 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 642492001258 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 642492001259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001260 dimer interface [polypeptide binding]; other site 642492001261 conserved gate region; other site 642492001262 putative PBP binding loops; other site 642492001263 ABC-ATPase subunit interface; other site 642492001264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492001265 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 642492001266 Walker A/P-loop; other site 642492001267 ATP binding site [chemical binding]; other site 642492001268 Q-loop/lid; other site 642492001269 ABC transporter signature motif; other site 642492001270 Walker B; other site 642492001271 D-loop; other site 642492001272 H-loop/switch region; other site 642492001273 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 642492001274 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 642492001275 Nucleotide-binding sites [chemical binding]; other site 642492001276 Walker A motif; other site 642492001277 Switch I region of nucleotide binding site; other site 642492001278 Fe4S4 binding sites [ion binding]; other site 642492001279 Switch II region of nucleotide binding site; other site 642492001280 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 642492001281 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001282 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 642492001283 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492001284 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 642492001285 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 642492001286 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 642492001287 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001288 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 642492001289 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 642492001290 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 642492001291 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 642492001292 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 642492001293 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 642492001294 FeS/SAM binding site; other site 642492001295 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 642492001296 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 642492001297 dimer interface [polypeptide binding]; other site 642492001298 [2Fe-2S] cluster binding site [ion binding]; other site 642492001299 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 642492001300 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 642492001301 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 642492001302 active site 642492001303 catalytic residues [active] 642492001304 metal binding site [ion binding]; metal-binding site 642492001305 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl17112 642492001306 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 642492001307 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 642492001308 putative ligand binding site [chemical binding]; other site 642492001309 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 642492001310 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 642492001311 TM-ABC transporter signature motif; other site 642492001312 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 642492001313 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 642492001314 TM-ABC transporter signature motif; other site 642492001315 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 642492001316 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 642492001317 Walker A/P-loop; other site 642492001318 ATP binding site [chemical binding]; other site 642492001319 Q-loop/lid; other site 642492001320 ABC transporter signature motif; other site 642492001321 Walker B; other site 642492001322 D-loop; other site 642492001323 H-loop/switch region; other site 642492001324 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 642492001325 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 642492001326 Walker A/P-loop; other site 642492001327 ATP binding site [chemical binding]; other site 642492001328 Q-loop/lid; other site 642492001329 ABC transporter signature motif; other site 642492001330 Walker B; other site 642492001331 D-loop; other site 642492001332 H-loop/switch region; other site 642492001333 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492001334 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 642492001335 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 642492001336 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 642492001337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492001338 homodimer interface [polypeptide binding]; other site 642492001339 catalytic residue [active] 642492001340 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 642492001341 Peptidase family M28; Region: Peptidase_M28; pfam04389 642492001342 metal binding site [ion binding]; metal-binding site 642492001343 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 642492001344 glycerol kinase; Provisional; Region: glpK; PRK00047 642492001345 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 642492001346 N- and C-terminal domain interface [polypeptide binding]; other site 642492001347 active site 642492001348 MgATP binding site [chemical binding]; other site 642492001349 catalytic site [active] 642492001350 metal binding site [ion binding]; metal-binding site 642492001351 glycerol binding site [chemical binding]; other site 642492001352 homotetramer interface [polypeptide binding]; other site 642492001353 homodimer interface [polypeptide binding]; other site 642492001354 FBP binding site [chemical binding]; other site 642492001355 protein IIAGlc interface [polypeptide binding]; other site 642492001356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 642492001357 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 642492001358 SAP domain; Region: SAP; cl02640 642492001359 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 642492001360 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 642492001361 active site 642492001362 multimer interface [polypeptide binding]; other site 642492001363 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 642492001364 predicted active site [active] 642492001365 catalytic triad [active] 642492001366 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 642492001367 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 642492001368 Cupin domain; Region: Cupin_2; pfam07883 642492001369 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492001370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001372 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 642492001373 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 642492001374 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 642492001375 trimer interface [polypeptide binding]; other site 642492001376 active site 642492001377 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 642492001378 catalytic site [active] 642492001379 endoglucanase; Region: PLN02308 642492001380 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; pfam00759 642492001381 Cellulose binding domain; Region: CBM_3; pfam00942 642492001382 Cellulose binding domain; Region: CBM_3; pfam00942 642492001383 Predicted membrane protein [Function unknown]; Region: COG2364 642492001384 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 642492001385 active site 642492001386 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 642492001387 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 642492001388 ATP binding site [chemical binding]; other site 642492001389 Mg2+ binding site [ion binding]; other site 642492001390 G-X-G motif; other site 642492001391 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 642492001392 hypothetical protein; Provisional; Region: PRK13665 642492001393 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492001394 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 642492001395 active site 642492001396 phosphorylation site [posttranslational modification] 642492001397 intermolecular recognition site; other site 642492001398 dimerization interface [polypeptide binding]; other site 642492001399 LytTr DNA-binding domain; Region: LytTR; smart00850 642492001400 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 642492001401 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492001402 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 642492001403 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 642492001404 dimerization interface [polypeptide binding]; other site 642492001405 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001407 dimer interface [polypeptide binding]; other site 642492001408 putative CheW interface [polypeptide binding]; other site 642492001409 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 642492001410 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492001411 DNA binding site [nucleotide binding] 642492001412 domain linker motif; other site 642492001413 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 642492001414 putative dimerization interface [polypeptide binding]; other site 642492001415 putative ligand binding site [chemical binding]; other site 642492001416 L-arabinose isomerase; Provisional; Region: PRK02929 642492001417 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 642492001418 hexamer (dimer of trimers) interface [polypeptide binding]; other site 642492001419 trimer interface [polypeptide binding]; other site 642492001420 substrate binding site [chemical binding]; other site 642492001421 Mn binding site [ion binding]; other site 642492001422 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 642492001423 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 642492001424 putative N- and C-terminal domain interface [polypeptide binding]; other site 642492001425 putative active site [active] 642492001426 MgATP binding site [chemical binding]; other site 642492001427 catalytic site [active] 642492001428 metal binding site [ion binding]; metal-binding site 642492001429 putative carbohydrate binding site [chemical binding]; other site 642492001430 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 642492001431 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 642492001432 intersubunit interface [polypeptide binding]; other site 642492001433 active site 642492001434 Zn2+ binding site [ion binding]; other site 642492001435 Response regulator receiver domain; Region: Response_reg; pfam00072 642492001436 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 642492001437 active site 642492001438 phosphorylation site [posttranslational modification] 642492001439 intermolecular recognition site; other site 642492001440 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 642492001441 dimerization interface [polypeptide binding]; other site 642492001442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001443 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001444 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001445 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001446 HAMP domain; Region: HAMP; pfam00672 642492001447 Histidine kinase; Region: His_kinase; pfam06580 642492001448 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 642492001449 ATP binding site [chemical binding]; other site 642492001450 Mg2+ binding site [ion binding]; other site 642492001451 G-X-G motif; other site 642492001452 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 642492001453 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 642492001454 putative ligand binding site [chemical binding]; other site 642492001455 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 642492001456 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 642492001457 Walker A/P-loop; other site 642492001458 ATP binding site [chemical binding]; other site 642492001459 Q-loop/lid; other site 642492001460 ABC transporter signature motif; other site 642492001461 Walker B; other site 642492001462 D-loop; other site 642492001463 H-loop/switch region; other site 642492001464 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 642492001465 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492001466 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 642492001467 TM-ABC transporter signature motif; other site 642492001468 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492001469 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 642492001470 TM-ABC transporter signature motif; other site 642492001471 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 642492001472 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492001473 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 642492001474 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492001475 Walker A/P-loop; other site 642492001476 ATP binding site [chemical binding]; other site 642492001477 Q-loop/lid; other site 642492001478 ABC transporter signature motif; other site 642492001479 Walker B; other site 642492001480 D-loop; other site 642492001481 H-loop/switch region; other site 642492001482 TOBE domain; Region: TOBE_2; pfam08402 642492001483 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 642492001484 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001485 dimer interface [polypeptide binding]; other site 642492001486 conserved gate region; other site 642492001487 putative PBP binding loops; other site 642492001488 ABC-ATPase subunit interface; other site 642492001489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001490 dimer interface [polypeptide binding]; other site 642492001491 conserved gate region; other site 642492001492 putative PBP binding loops; other site 642492001493 ABC-ATPase subunit interface; other site 642492001494 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 642492001495 Histidine kinase; Region: His_kinase; pfam06580 642492001496 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 642492001497 ATP binding site [chemical binding]; other site 642492001498 Mg2+ binding site [ion binding]; other site 642492001499 G-X-G motif; other site 642492001500 Response regulator receiver domain; Region: Response_reg; pfam00072 642492001501 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 642492001502 active site 642492001503 phosphorylation site [posttranslational modification] 642492001504 intermolecular recognition site; other site 642492001505 dimerization interface [polypeptide binding]; other site 642492001506 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492001507 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001508 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001509 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001510 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001511 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492001512 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492001513 Coenzyme A binding pocket [chemical binding]; other site 642492001514 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492001515 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492001516 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 642492001517 DOMON-like type 9 carbohydrate binding module of xylanases; Region: CBM9_like_1; cd00005 642492001518 Ca binding site [ion binding]; other site 642492001519 carbohydrate binding site [chemical binding]; other site 642492001520 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001521 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001522 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 642492001523 non-specific DNA interactions [nucleotide binding]; other site 642492001524 DNA binding site [nucleotide binding] 642492001525 sequence specific DNA binding site [nucleotide binding]; other site 642492001526 putative cAMP binding site [chemical binding]; other site 642492001527 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 642492001528 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 642492001529 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 642492001530 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 642492001531 hexamer (dimer of trimers) interface [polypeptide binding]; other site 642492001532 trimer interface [polypeptide binding]; other site 642492001533 substrate binding site [chemical binding]; other site 642492001534 Mn binding site [ion binding]; other site 642492001535 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492001536 Histidine kinase; Region: His_kinase; pfam06580 642492001537 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 642492001538 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 642492001539 active site 642492001540 phosphorylation site [posttranslational modification] 642492001541 intermolecular recognition site; other site 642492001542 dimerization interface [polypeptide binding]; other site 642492001543 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492001544 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492001545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001546 dimer interface [polypeptide binding]; other site 642492001547 conserved gate region; other site 642492001548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001549 ABC-ATPase subunit interface; other site 642492001550 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492001551 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001552 dimer interface [polypeptide binding]; other site 642492001553 conserved gate region; other site 642492001554 ABC-ATPase subunit interface; other site 642492001555 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 642492001556 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 642492001557 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 642492001558 inhibitor binding site; inhibition site 642492001559 active site 642492001560 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492001561 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 642492001562 dimerization interface [polypeptide binding]; other site 642492001563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001564 dimer interface [polypeptide binding]; other site 642492001565 putative CheW interface [polypeptide binding]; other site 642492001566 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 642492001567 active site 642492001568 catalytic residues [active] 642492001569 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492001570 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 642492001571 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492001572 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 642492001573 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 642492001574 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 642492001575 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 642492001576 active site 642492001577 hinge; other site 642492001578 hypothetical protein; Reviewed; Region: PRK09588 642492001579 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 642492001580 RF-1 domain; Region: RF-1; cl17422 642492001581 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 642492001582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492001583 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492001584 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492001585 putative transposase OrfB; Reviewed; Region: PHA02517 642492001586 HTH-like domain; Region: HTH_21; pfam13276 642492001587 Integrase core domain; Region: rve; pfam00665 642492001588 Integrase core domain; Region: rve_2; pfam13333 642492001589 hypothetical protein; Provisional; Region: PRK06062 642492001590 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 642492001591 inhibitor-cofactor binding pocket; inhibition site 642492001592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492001593 catalytic residue [active] 642492001594 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 642492001595 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 642492001596 active site 642492001597 NAD binding site [chemical binding]; other site 642492001598 metal binding site [ion binding]; metal-binding site 642492001599 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492001600 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 642492001601 Walker A/P-loop; other site 642492001602 ATP binding site [chemical binding]; other site 642492001603 Q-loop/lid; other site 642492001604 ABC transporter signature motif; other site 642492001605 Walker B; other site 642492001606 D-loop; other site 642492001607 H-loop/switch region; other site 642492001608 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492001609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001610 dimer interface [polypeptide binding]; other site 642492001611 conserved gate region; other site 642492001612 putative PBP binding loops; other site 642492001613 ABC-ATPase subunit interface; other site 642492001614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001615 NMT1/THI5 like; Region: NMT1; pfam09084 642492001616 phenylhydantoinase; Validated; Region: PRK08323 642492001617 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 642492001618 tetramer interface [polypeptide binding]; other site 642492001619 active site 642492001620 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 642492001621 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 642492001622 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 642492001623 phosphate binding site [ion binding]; other site 642492001624 4Fe-4S binding domain; Region: Fer4; pfam00037 642492001625 allantoate amidohydrolase; Reviewed; Region: PRK09290 642492001626 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 642492001627 active site 642492001628 metal binding site [ion binding]; metal-binding site 642492001629 dimer interface [polypeptide binding]; other site 642492001630 myosin-cross-reactive antigen; Provisional; Region: PRK13977 642492001631 Short C-terminal domain; Region: SHOCT; pfam09851 642492001632 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 642492001633 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 642492001634 active site 642492001635 catalytic residue [active] 642492001636 dimer interface [polypeptide binding]; other site 642492001637 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492001638 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 642492001639 metal ion-dependent adhesion site (MIDAS); other site 642492001640 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 642492001641 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 642492001642 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 642492001643 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492001644 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001645 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001646 Glycosyl hydrolase family 67 middle domain; Region: Glyco_hydro_67M; pfam07488 642492001647 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 642492001648 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 642492001649 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 642492001650 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 642492001651 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 642492001652 mannonate dehydratase; Provisional; Region: PRK03906 642492001653 mannonate dehydratase; Region: uxuA; TIGR00695 642492001654 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 642492001655 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 642492001656 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 642492001657 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 642492001658 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 642492001659 putative active site [active] 642492001660 putative metal binding site [ion binding]; other site 642492001661 Winged helix-turn helix; Region: HTH_29; pfam13551 642492001662 Homeodomain-like domain; Region: HTH_23; pfam13384 642492001663 Homeodomain-like domain; Region: HTH_32; pfam13565 642492001664 Winged helix-turn helix; Region: HTH_33; pfam13592 642492001665 DDE superfamily endonuclease; Region: DDE_3; pfam13358 642492001666 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 642492001667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492001668 Walker A/P-loop; other site 642492001669 ATP binding site [chemical binding]; other site 642492001670 Q-loop/lid; other site 642492001671 ABC transporter signature motif; other site 642492001672 Walker B; other site 642492001673 D-loop; other site 642492001674 H-loop/switch region; other site 642492001675 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 642492001678 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 642492001679 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492001680 DNA-binding site [nucleotide binding]; DNA binding site 642492001681 UTRA domain; Region: UTRA; pfam07702 642492001682 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 642492001683 active site 642492001684 intersubunit interactions; other site 642492001685 catalytic residue [active] 642492001686 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 642492001687 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 642492001688 TPP-binding site [chemical binding]; other site 642492001689 dimer interface [polypeptide binding]; other site 642492001690 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 642492001691 PYR/PP interface [polypeptide binding]; other site 642492001692 dimer interface [polypeptide binding]; other site 642492001693 TPP binding site [chemical binding]; other site 642492001694 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492001695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001696 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 642492001697 dimerization interface [polypeptide binding]; other site 642492001698 Histidine kinase; Region: His_kinase; pfam06580 642492001699 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 642492001700 ATP binding site [chemical binding]; other site 642492001701 Mg2+ binding site [ion binding]; other site 642492001702 G-X-G motif; other site 642492001703 Response regulator receiver domain; Region: Response_reg; pfam00072 642492001704 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 642492001705 active site 642492001706 phosphorylation site [posttranslational modification] 642492001707 intermolecular recognition site; other site 642492001708 dimerization interface [polypeptide binding]; other site 642492001709 Helix-turn-helix domain; Region: HTH_18; pfam12833 642492001710 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001711 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001712 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001713 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492001714 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492001715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001716 dimer interface [polypeptide binding]; other site 642492001717 conserved gate region; other site 642492001718 putative PBP binding loops; other site 642492001719 ABC-ATPase subunit interface; other site 642492001720 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492001721 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001722 dimer interface [polypeptide binding]; other site 642492001723 conserved gate region; other site 642492001724 putative PBP binding loops; other site 642492001725 ABC-ATPase subunit interface; other site 642492001726 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 642492001727 Cellulose binding domain; Region: CBM_3; cl03026 642492001728 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 642492001729 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 642492001730 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 642492001731 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 642492001732 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 642492001733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 642492001734 SPFH domain / Band 7 family; Region: Band_7; pfam01145 642492001735 V-type ATP synthase subunit E; Provisional; Region: PRK01558 642492001736 Transposase; Region: DEDD_Tnp_IS110; pfam01548 642492001737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 642492001738 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 642492001739 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 642492001740 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 642492001741 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 642492001742 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 642492001743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492001744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492001745 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 642492001746 dimerization interface [polypeptide binding]; other site 642492001747 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u1; cd12826 642492001748 Cl binding site [ion binding]; other site 642492001749 oligomer interface [polypeptide binding]; other site 642492001750 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 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 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001754 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 642492001755 Double zinc ribbon; Region: DZR; pfam12773 642492001756 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 642492001757 N-carbamolyputrescine amidase; Region: PLN02747 642492001758 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 642492001759 active site 642492001760 catalytic triad [active] 642492001761 dimer interface [polypeptide binding]; other site 642492001762 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 642492001763 metal ion-dependent adhesion site (MIDAS); other site 642492001764 Tubulin like; Region: Tubulin_2; pfam13809 642492001765 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 642492001766 metal ion-dependent adhesion site (MIDAS); other site 642492001767 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492001768 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001769 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001770 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 642492001771 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 642492001772 NAD(P) binding site [chemical binding]; other site 642492001773 LDH/MDH dimer interface [polypeptide binding]; other site 642492001774 substrate binding site [chemical binding]; other site 642492001775 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 642492001776 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 642492001777 ATP binding site [chemical binding]; other site 642492001778 Mg++ binding site [ion binding]; other site 642492001779 motif III; other site 642492001780 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 642492001781 nucleotide binding region [chemical binding]; other site 642492001782 ATP-binding site [chemical binding]; other site 642492001783 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 642492001784 RNA binding site [nucleotide binding]; other site 642492001785 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 642492001786 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 642492001787 folate binding site [chemical binding]; other site 642492001788 NADP+ binding site [chemical binding]; other site 642492001789 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 642492001790 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 642492001791 DNA-binding site [nucleotide binding]; DNA binding site 642492001792 RNA-binding motif; other site 642492001793 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 642492001794 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 642492001795 FAD binding pocket [chemical binding]; other site 642492001796 FAD binding motif [chemical binding]; other site 642492001797 phosphate binding motif [ion binding]; other site 642492001798 beta-alpha-beta structure motif; other site 642492001799 NAD binding pocket [chemical binding]; other site 642492001800 Iron coordination center [ion binding]; other site 642492001801 putative oxidoreductase; Provisional; Region: PRK12831 642492001802 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 642492001803 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 642492001804 NAD(P) binding site [chemical binding]; other site 642492001805 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001807 dimer interface [polypeptide binding]; other site 642492001808 putative CheW interface [polypeptide binding]; other site 642492001809 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 642492001810 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 642492001811 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 642492001812 Cache domain; Region: Cache_1; pfam02743 642492001813 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001814 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001815 dimer interface [polypeptide binding]; other site 642492001816 putative CheW interface [polypeptide binding]; other site 642492001817 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 642492001818 active site 642492001819 metal-binding site [ion binding] 642492001820 nucleotide-binding site [chemical binding]; other site 642492001821 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 642492001822 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 642492001823 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492001824 catalytic residue [active] 642492001825 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492001826 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 642492001827 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492001828 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 642492001829 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 642492001830 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 642492001831 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 642492001832 S-adenosylmethionine binding site [chemical binding]; other site 642492001833 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 642492001834 Rubredoxin; Region: Rubredoxin; pfam00301 642492001835 iron binding site [ion binding]; other site 642492001836 Rubrerythrin [Energy production and conversion]; Region: COG1592 642492001837 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 642492001838 diiron binding motif [ion binding]; other site 642492001839 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492001840 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492001841 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 642492001842 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 642492001843 active site 642492001844 dimer interface [polypeptide binding]; other site 642492001845 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492001846 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492001847 Zn2+ binding site [ion binding]; other site 642492001848 Mg2+ binding site [ion binding]; other site 642492001849 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 642492001850 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 642492001851 HIGH motif; other site 642492001852 active site 642492001853 KMSKS motif; other site 642492001854 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 642492001855 tRNA binding surface [nucleotide binding]; other site 642492001856 anticodon binding site; other site 642492001857 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 642492001858 dimer interface [polypeptide binding]; other site 642492001859 putative tRNA-binding site [nucleotide binding]; other site 642492001860 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 642492001861 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 642492001862 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 642492001863 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 642492001864 Pleckstrin homology-like domain; Region: PH-like; cl17171 642492001865 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492001866 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 642492001867 Putative cyclase; Region: Cyclase; pfam04199 642492001868 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 642492001869 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 642492001870 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492001871 MarR family; Region: MarR_2; pfam12802 642492001872 MarR family; Region: MarR_2; cl17246 642492001873 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 642492001874 Major Facilitator Superfamily; Region: MFS_1; pfam07690 642492001875 putative substrate translocation pore; other site 642492001876 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001877 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001878 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001879 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 642492001880 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 642492001881 active site 642492001882 Domain of unknown function (DUF348); Region: DUF348; pfam03990 642492001883 G5 domain; Region: G5; pfam07501 642492001884 3D domain; Region: 3D; cl01439 642492001885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492001886 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 642492001887 dimerization interface [polypeptide binding]; other site 642492001888 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 642492001889 dimer interface [polypeptide binding]; other site 642492001890 phosphorylation site [posttranslational modification] 642492001891 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 642492001892 ATP binding site [chemical binding]; other site 642492001893 Mg2+ binding site [ion binding]; other site 642492001894 G-X-G motif; other site 642492001895 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492001896 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 642492001897 active site 642492001898 phosphorylation site [posttranslational modification] 642492001899 intermolecular recognition site; other site 642492001900 dimerization interface [polypeptide binding]; other site 642492001901 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 642492001902 DNA binding site [nucleotide binding] 642492001903 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492001904 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492001905 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 642492001906 Walker A/P-loop; other site 642492001907 ATP binding site [chemical binding]; other site 642492001908 Q-loop/lid; other site 642492001909 ABC transporter signature motif; other site 642492001910 Walker B; other site 642492001911 D-loop; other site 642492001912 H-loop/switch region; other site 642492001913 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001914 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001915 dimer interface [polypeptide binding]; other site 642492001916 putative CheW interface [polypeptide binding]; other site 642492001917 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 642492001918 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492001919 substrate binding pocket [chemical binding]; other site 642492001920 membrane-bound complex binding site; other site 642492001921 hinge residues; other site 642492001922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492001923 dimer interface [polypeptide binding]; other site 642492001924 conserved gate region; other site 642492001925 putative PBP binding loops; other site 642492001926 ABC-ATPase subunit interface; other site 642492001927 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492001928 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 642492001929 Walker A/P-loop; other site 642492001930 ATP binding site [chemical binding]; other site 642492001931 Q-loop/lid; other site 642492001932 ABC transporter signature motif; other site 642492001933 Walker B; other site 642492001934 D-loop; other site 642492001935 H-loop/switch region; other site 642492001936 HAMP domain; Region: HAMP; pfam00672 642492001937 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492001938 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492001939 dimer interface [polypeptide binding]; other site 642492001940 putative CheW interface [polypeptide binding]; other site 642492001941 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492001942 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 642492001943 putative dimer interface [polypeptide binding]; other site 642492001944 catalytic triad [active] 642492001945 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 642492001946 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 642492001947 maltose O-acetyltransferase; Provisional; Region: PRK10092 642492001948 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 642492001949 active site 642492001950 substrate binding site [chemical binding]; other site 642492001951 trimer interface [polypeptide binding]; other site 642492001952 CoA binding site [chemical binding]; other site 642492001953 Phage Tail Collar Domain; Region: Collar; pfam07484 642492001954 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 642492001955 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 642492001956 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 642492001957 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 642492001958 S-layer homology domain; Region: SLH; pfam00395 642492001959 S-layer homology domain; Region: SLH; pfam00395 642492001960 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 642492001961 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 642492001962 putative binding site residues; other site 642492001963 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 642492001964 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 642492001965 ABC-ATPase subunit interface; other site 642492001966 dimer interface [polypeptide binding]; other site 642492001967 putative PBP binding regions; other site 642492001968 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492001969 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492001970 Walker A/P-loop; other site 642492001971 ATP binding site [chemical binding]; other site 642492001972 Q-loop/lid; other site 642492001973 ABC transporter signature motif; other site 642492001974 Walker B; other site 642492001975 D-loop; other site 642492001976 H-loop/switch region; other site 642492001977 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 642492001978 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 642492001979 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 642492001980 Prephenate dehydratase; Region: PDT; pfam00800 642492001981 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 642492001982 putative L-Phe binding site [chemical binding]; other site 642492001983 myosin-cross-reactive antigen; Provisional; Region: PRK13977 642492001984 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 642492001985 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 642492001986 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 642492001987 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 642492001988 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 642492001989 putative substrate translocation pore; other site 642492001990 Major Facilitator Superfamily; Region: MFS_1; pfam07690 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 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492001996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492001997 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492001998 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 642492001999 endoglucanase; Region: PLN02420 642492002000 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 642492002001 Cellulose binding domain; Region: CBM_3; cl03026 642492002002 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 642492002003 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 642492002004 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 642492002005 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 642492002006 Cupin domain; Region: Cupin_2; pfam07883 642492002007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492002008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492002009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492002010 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 642492002011 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492002012 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492002013 Walker A/P-loop; other site 642492002014 ATP binding site [chemical binding]; other site 642492002015 Q-loop/lid; other site 642492002016 ABC transporter signature motif; other site 642492002017 Walker B; other site 642492002018 D-loop; other site 642492002019 H-loop/switch region; other site 642492002020 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492002021 FtsX-like permease family; Region: FtsX; pfam02687 642492002022 FtsX-like permease family; Region: FtsX; pfam02687 642492002023 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492002024 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 642492002025 active site 642492002026 phosphorylation site [posttranslational modification] 642492002027 intermolecular recognition site; other site 642492002028 dimerization interface [polypeptide binding]; other site 642492002029 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 642492002030 DNA binding site [nucleotide binding] 642492002031 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492002032 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 642492002033 ATP binding site [chemical binding]; other site 642492002034 Mg2+ binding site [ion binding]; other site 642492002035 G-X-G motif; other site 642492002036 endoglucanase; Region: PLN02420 642492002037 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; pfam00759 642492002038 Cellulose binding domain; Region: CBM_3; cl03026 642492002039 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 642492002040 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 642492002041 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 642492002042 motif II; other site 642492002043 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 642492002044 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 642492002045 active site 642492002046 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 642492002047 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492002048 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492002049 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 642492002050 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 642492002051 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 642492002052 shikimate binding site; other site 642492002053 NAD(P) binding site [chemical binding]; other site 642492002054 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 642492002055 Pectate lyase; Region: Pec_lyase_C; cl01593 642492002056 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492002057 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492002058 DNA binding site [nucleotide binding] 642492002059 domain linker motif; other site 642492002060 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 642492002061 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 642492002062 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492002063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492002064 dimer interface [polypeptide binding]; other site 642492002065 conserved gate region; other site 642492002066 putative PBP binding loops; other site 642492002067 ABC-ATPase subunit interface; other site 642492002068 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492002069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492002070 dimer interface [polypeptide binding]; other site 642492002071 conserved gate region; other site 642492002072 ABC-ATPase subunit interface; other site 642492002073 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 642492002074 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 642492002075 dimerization interface [polypeptide binding]; other site 642492002076 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492002077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002078 dimer interface [polypeptide binding]; other site 642492002079 putative CheW interface [polypeptide binding]; other site 642492002080 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 642492002081 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 642492002082 S-layer homology domain; Region: SLH; pfam00395 642492002083 S-layer homology domain; Region: SLH; pfam00395 642492002084 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 642492002085 putative efflux protein, MATE family; Region: matE; TIGR00797 642492002086 Repair protein; Region: Repair_PSII; pfam04536 642492002087 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 642492002088 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 642492002089 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 642492002090 putative active site [active] 642492002091 heme pocket [chemical binding]; other site 642492002092 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 642492002093 dimer interface [polypeptide binding]; other site 642492002094 phosphorylation site [posttranslational modification] 642492002095 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 642492002096 ATP binding site [chemical binding]; other site 642492002097 Mg2+ binding site [ion binding]; other site 642492002098 G-X-G motif; other site 642492002099 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 642492002100 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 642492002101 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 642492002102 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 642492002103 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 642492002104 glutamine binding [chemical binding]; other site 642492002105 catalytic triad [active] 642492002106 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 642492002107 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 642492002108 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 642492002109 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 642492002110 active site 642492002111 ribulose/triose binding site [chemical binding]; other site 642492002112 phosphate binding site [ion binding]; other site 642492002113 substrate (anthranilate) binding pocket [chemical binding]; other site 642492002114 product (indole) binding pocket [chemical binding]; other site 642492002115 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 642492002116 active site 642492002117 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 642492002118 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 642492002119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492002120 catalytic residue [active] 642492002121 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 642492002122 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 642492002123 substrate binding site [chemical binding]; other site 642492002124 active site 642492002125 catalytic residues [active] 642492002126 heterodimer interface [polypeptide binding]; other site 642492002127 Putative esterase; Region: Esterase; pfam00756 642492002128 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 642492002129 endoglucanase; Region: PLN02420 642492002130 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; pfam00759 642492002131 Cellulose binding domain; Region: CBM_3; cl03026 642492002132 Cellulose binding domain; Region: CBM_3; pfam00942 642492002133 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492002134 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492002135 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 642492002136 S-adenosylmethionine binding site [chemical binding]; other site 642492002137 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 642492002138 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 642492002139 catalytic residues [active] 642492002140 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492002141 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 642492002142 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 642492002143 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 642492002144 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 642492002145 Int/Topo IB signature motif; other site 642492002146 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 642492002147 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 642492002148 active site 642492002149 catalytic site [active] 642492002150 substrate binding site [chemical binding]; other site 642492002151 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492002152 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 642492002153 non-specific DNA binding site [nucleotide binding]; other site 642492002154 salt bridge; other site 642492002155 sequence-specific DNA binding site [nucleotide binding]; other site 642492002156 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492002157 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 642492002158 ATP binding site [chemical binding]; other site 642492002159 substrate binding site [chemical binding]; other site 642492002160 VRR-NUC domain; Region: VRR_NUC; pfam08774 642492002161 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 642492002162 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 642492002163 P-loop; other site 642492002164 Magnesium ion binding site [ion binding]; other site 642492002165 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 642492002166 Magnesium ion binding site [ion binding]; other site 642492002167 ParB-like nuclease domain; Region: ParB; smart00470 642492002168 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 642492002169 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 642492002170 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 642492002171 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 642492002172 cofactor binding site; other site 642492002173 DNA binding site [nucleotide binding] 642492002174 substrate interaction site [chemical binding]; other site 642492002175 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 642492002176 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 642492002177 ECF sigma factor; Region: Sigma70_ECF; pfam07638 642492002178 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 642492002179 HNH endonuclease; Region: HNH; pfam01844 642492002180 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 642492002181 Phage-related protein [Function unknown]; Region: COG4695; cl01923 642492002182 Phage head maturation protease [General function prediction only]; Region: COG3740 642492002183 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 642492002184 Phage capsid family; Region: Phage_capsid; pfam05065 642492002185 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 642492002186 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 642492002187 Phage-related protein [Function unknown]; Region: COG5412 642492002188 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 642492002189 Holin family; Region: Phage_holin_4; pfam05105 642492002190 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 642492002191 amidase catalytic site [active] 642492002192 Zn binding residues [ion binding]; other site 642492002193 substrate binding site [chemical binding]; other site 642492002194 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 642492002195 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492002196 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492002197 DNA binding site [nucleotide binding] 642492002198 domain linker motif; other site 642492002199 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 642492002200 putative dimerization interface [polypeptide binding]; other site 642492002201 putative ligand binding site [chemical binding]; other site 642492002202 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 642492002203 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 642492002204 Ca binding site [ion binding]; other site 642492002205 active site 642492002206 catalytic site [active] 642492002207 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 642492002208 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 642492002209 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 642492002210 active site turn [active] 642492002211 phosphorylation site [posttranslational modification] 642492002212 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 642492002213 putative catalytic site [active] 642492002214 putative metal binding site [ion binding]; other site 642492002215 putative phosphate binding site [ion binding]; other site 642492002216 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 642492002217 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492002218 fumarate hydratase; Provisional; Region: PRK06246 642492002219 Fumarase C-terminus; Region: Fumerase_C; cl00795 642492002220 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 642492002221 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 642492002222 tandem repeat interface [polypeptide binding]; other site 642492002223 oligomer interface [polypeptide binding]; other site 642492002224 active site residues [active] 642492002225 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 642492002226 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 642492002227 acyl-activating enzyme (AAE) consensus motif; other site 642492002228 AMP binding site [chemical binding]; other site 642492002229 active site 642492002230 CoA binding site [chemical binding]; other site 642492002231 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 642492002232 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 642492002233 acyl-activating enzyme (AAE) consensus motif; other site 642492002234 AMP binding site [chemical binding]; other site 642492002235 active site 642492002236 CoA binding site [chemical binding]; other site 642492002237 ACT domain-containing protein [General function prediction only]; Region: COG4747 642492002238 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 642492002239 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 642492002240 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492002241 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 642492002242 dimerization interface [polypeptide binding]; other site 642492002243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002245 dimer interface [polypeptide binding]; other site 642492002246 putative CheW interface [polypeptide binding]; other site 642492002247 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 642492002248 dimerization interface [polypeptide binding]; other site 642492002249 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492002250 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002251 dimer interface [polypeptide binding]; other site 642492002252 putative CheW interface [polypeptide binding]; other site 642492002253 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 642492002254 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 642492002255 putative catalytic cysteine [active] 642492002256 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 642492002257 putative active site [active] 642492002258 metal binding site [ion binding]; metal-binding site 642492002259 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 642492002260 active site 642492002261 DNA binding site [nucleotide binding] 642492002262 Int/Topo IB signature motif; other site 642492002263 Domain of unknown function (DUF955); Region: DUF955; pfam06114 642492002264 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 642492002265 salt bridge; other site 642492002266 non-specific DNA binding site [nucleotide binding]; other site 642492002267 sequence-specific DNA binding site [nucleotide binding]; other site 642492002268 Helix-turn-helix domain; Region: HTH_17; cl17695 642492002269 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 642492002270 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 642492002271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492002272 AAA domain; Region: AAA_23; pfam13476 642492002273 Walker A/P-loop; other site 642492002274 ATP binding site [chemical binding]; other site 642492002275 RecT family; Region: RecT; pfam03837 642492002276 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 642492002277 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 642492002278 hypothetical protein; Validated; Region: PRK08116 642492002279 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 642492002280 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 642492002281 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 642492002282 YopX protein; Region: YopX; pfam09643 642492002283 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 642492002284 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 642492002285 active site 642492002286 catalytic residues [active] 642492002287 DNA binding site [nucleotide binding] 642492002288 Int/Topo IB signature motif; other site 642492002289 Uncharacterized conserved protein [Function unknown]; Region: COG5484 642492002290 Phage terminase small subunit; Region: Phage_terminase; pfam10668 642492002291 Phage terminase large subunit; Region: Terminase_3; cl12054 642492002292 Terminase-like family; Region: Terminase_6; pfam03237 642492002293 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492002294 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 642492002295 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 642492002296 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 642492002297 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 642492002298 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 642492002299 Minor capsid protein; Region: Minor_capsid_2; pfam11114 642492002300 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 642492002301 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492002302 Haemolysin XhlA; Region: XhlA; pfam10779 642492002303 Bacteriophage holin; Region: Phage_holin_1; cl02344 642492002304 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 642492002305 amidase catalytic site [active] 642492002306 Zn binding residues [ion binding]; other site 642492002307 substrate binding site [chemical binding]; other site 642492002308 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 642492002309 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 642492002310 P-loop; other site 642492002311 Magnesium ion binding site [ion binding]; other site 642492002312 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 642492002313 Magnesium ion binding site [ion binding]; other site 642492002314 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 642492002315 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 642492002316 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492002317 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002318 dimer interface [polypeptide binding]; other site 642492002319 putative CheW interface [polypeptide binding]; other site 642492002320 flagellin; Provisional; Region: PRK12804 642492002321 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492002322 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 642492002323 seryl-tRNA synthetase; Provisional; Region: PRK05431 642492002324 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 642492002325 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 642492002326 dimer interface [polypeptide binding]; other site 642492002327 active site 642492002328 motif 1; other site 642492002329 motif 2; other site 642492002330 motif 3; other site 642492002331 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 642492002332 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 642492002333 putative active site [active] 642492002334 putative NTP binding site [chemical binding]; other site 642492002335 putative nucleic acid binding site [nucleotide binding]; other site 642492002336 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 642492002337 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 642492002338 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492002339 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 642492002340 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 642492002341 S-layer homology domain; Region: SLH; pfam00395 642492002342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492002343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492002344 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 642492002345 UbiA prenyltransferase family; Region: UbiA; pfam01040 642492002346 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 642492002347 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 642492002348 Int/Topo IB signature motif; other site 642492002349 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 642492002350 non-specific DNA binding site [nucleotide binding]; other site 642492002351 salt bridge; other site 642492002352 sequence-specific DNA binding site [nucleotide binding]; other site 642492002353 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492002354 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 642492002355 non-specific DNA binding site [nucleotide binding]; other site 642492002356 salt bridge; other site 642492002357 sequence-specific DNA binding site [nucleotide binding]; other site 642492002358 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492002359 Helix-turn-helix domain; Region: HTH_36; pfam13730 642492002360 Walker A motif; other site 642492002361 ATP binding site [chemical binding]; other site 642492002362 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 642492002363 Walker B motif; other site 642492002364 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 642492002365 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 642492002366 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492002367 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 642492002368 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492002369 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 642492002370 DNA binding residues [nucleotide binding] 642492002371 Winged helix-turn helix; Region: HTH_29; pfam13551 642492002372 Homeodomain-like domain; Region: HTH_23; pfam13384 642492002373 Homeodomain-like domain; Region: HTH_32; pfam13565 642492002374 Winged helix-turn helix; Region: HTH_33; pfam13592 642492002375 DDE superfamily endonuclease; Region: DDE_3; pfam13358 642492002376 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492002377 dimer interface [polypeptide binding]; other site 642492002378 conserved gate region; other site 642492002379 putative PBP binding loops; other site 642492002380 ABC-ATPase subunit interface; other site 642492002381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492002382 dimer interface [polypeptide binding]; other site 642492002383 conserved gate region; other site 642492002384 putative PBP binding loops; other site 642492002385 ABC-ATPase subunit interface; other site 642492002386 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492002387 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 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 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 642492002396 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 642492002397 substrate binding pocket [chemical binding]; other site 642492002398 membrane-bound complex binding site; other site 642492002399 hinge residues; other site 642492002400 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 642492002401 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 642492002402 hypothetical protein; Provisional; Region: PRK10621 642492002403 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 642492002404 Prominin; Region: Prominin; pfam05478 642492002405 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 642492002406 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 642492002407 NodB motif; other site 642492002408 active site 642492002409 catalytic site [active] 642492002410 Zn binding site [ion binding]; other site 642492002411 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 642492002412 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 642492002413 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 642492002414 active site 642492002415 catalytic site [active] 642492002416 metal binding site [ion binding]; metal-binding site 642492002417 dimer interface [polypeptide binding]; other site 642492002418 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 642492002419 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 642492002420 ApbE family; Region: ApbE; pfam02424 642492002421 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 642492002422 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492002423 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 642492002424 trimer interface [polypeptide binding]; other site 642492002425 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 642492002426 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 642492002427 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 642492002428 substrate binding pocket [chemical binding]; other site 642492002429 chain length determination region; other site 642492002430 substrate-Mg2+ binding site; other site 642492002431 catalytic residues [active] 642492002432 aspartate-rich region 1; other site 642492002433 active site lid residues [active] 642492002434 aspartate-rich region 2; other site 642492002435 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 642492002436 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492002437 active site 642492002438 motif I; other site 642492002439 motif II; other site 642492002440 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 642492002441 Putative zinc-finger; Region: zf-HC2; pfam13490 642492002442 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 642492002443 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492002444 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 642492002445 DNA binding residues [nucleotide binding] 642492002446 signal recognition particle protein SRP54; Region: SRP54_euk; TIGR01425 642492002447 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 642492002448 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 642492002449 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492002450 DNA-binding site [nucleotide binding]; DNA binding site 642492002451 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 642492002452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492002453 homodimer interface [polypeptide binding]; other site 642492002454 catalytic residue [active] 642492002455 Response regulator receiver domain; Region: Response_reg; pfam00072 642492002456 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 642492002457 active site 642492002458 phosphorylation site [posttranslational modification] 642492002459 intermolecular recognition site; other site 642492002460 dimerization interface [polypeptide binding]; other site 642492002461 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 642492002462 Pyruvate formate lyase 1; Region: PFL1; cd01678 642492002463 coenzyme A binding site [chemical binding]; other site 642492002464 active site 642492002465 catalytic residues [active] 642492002466 glycine loop; other site 642492002467 HEAT repeats; Region: HEAT_2; pfam13646 642492002468 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 642492002469 S-adenosylmethionine binding site [chemical binding]; other site 642492002470 RDD family; Region: RDD; pfam06271 642492002471 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 642492002472 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 642492002473 LytTr DNA-binding domain; Region: LytTR; pfam04397 642492002474 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492002475 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492002476 Walker A/P-loop; other site 642492002477 ATP binding site [chemical binding]; other site 642492002478 Q-loop/lid; other site 642492002479 ABC transporter signature motif; other site 642492002480 Walker B; other site 642492002481 D-loop; other site 642492002482 H-loop/switch region; other site 642492002483 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 642492002484 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 642492002485 putative ligand binding site [chemical binding]; other site 642492002486 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492002487 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 642492002488 TM-ABC transporter signature motif; other site 642492002489 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492002490 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 642492002491 TM-ABC transporter signature motif; other site 642492002492 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 642492002493 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 642492002494 Walker A/P-loop; other site 642492002495 ATP binding site [chemical binding]; other site 642492002496 Q-loop/lid; other site 642492002497 ABC transporter signature motif; other site 642492002498 Walker B; other site 642492002499 D-loop; other site 642492002500 H-loop/switch region; other site 642492002501 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 642492002502 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 642492002503 Walker A/P-loop; other site 642492002504 ATP binding site [chemical binding]; other site 642492002505 Q-loop/lid; other site 642492002506 ABC transporter signature motif; other site 642492002507 Walker B; other site 642492002508 D-loop; other site 642492002509 H-loop/switch region; other site 642492002510 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 642492002511 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 642492002512 DNA binding residues [nucleotide binding] 642492002513 drug binding residues [chemical binding]; other site 642492002514 dimer interface [polypeptide binding]; other site 642492002515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492002516 Walker A/P-loop; other site 642492002517 ATP binding site [chemical binding]; other site 642492002518 Q-loop/lid; other site 642492002519 ABC transporter signature motif; other site 642492002520 Walker B; other site 642492002521 D-loop; other site 642492002522 H-loop/switch region; other site 642492002523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492002524 Walker A/P-loop; other site 642492002525 ATP binding site [chemical binding]; other site 642492002526 Q-loop/lid; other site 642492002527 ABC transporter signature motif; other site 642492002528 Walker B; other site 642492002529 D-loop; other site 642492002530 H-loop/switch region; other site 642492002531 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 642492002532 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 642492002533 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 642492002534 S1 domain; Region: S1_2; pfam13509 642492002535 S1 domain; Region: S1_2; pfam13509 642492002536 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 642492002537 RNA binding site [nucleotide binding]; other site 642492002538 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 642492002539 Int/Topo IB signature motif; other site 642492002540 Domain of unknown function (DUF955); Region: DUF955; pfam06114 642492002541 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 642492002542 non-specific DNA binding site [nucleotide binding]; other site 642492002543 salt bridge; other site 642492002544 sequence-specific DNA binding site [nucleotide binding]; other site 642492002545 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 642492002546 non-specific DNA binding site [nucleotide binding]; other site 642492002547 salt bridge; other site 642492002548 sequence-specific DNA binding site [nucleotide binding]; other site 642492002549 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492002550 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 642492002551 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 642492002552 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 642492002553 HNH endonuclease; Region: HNH_3; pfam13392 642492002554 Protein of unknown function (DUF444); Region: DUF444; cl17371 642492002555 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 642492002556 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 642492002557 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 642492002558 dimer interface [polypeptide binding]; other site 642492002559 ssDNA binding site [nucleotide binding]; other site 642492002560 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492002561 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 642492002562 Walker A motif; other site 642492002563 ATP binding site [chemical binding]; other site 642492002564 Walker B motif; other site 642492002565 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 642492002566 DNA binding site [nucleotide binding] 642492002567 substrate interaction site [chemical binding]; other site 642492002568 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492002569 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 642492002570 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 642492002571 DNA binding residues [nucleotide binding] 642492002572 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 642492002573 DNA-binding interface [nucleotide binding]; DNA binding site 642492002574 Protein of unknown function (DUF464); Region: DUF464; pfam04327 642492002575 Phage terminase large subunit; Region: Terminase_3; cl12054 642492002576 Terminase-like family; Region: Terminase_6; pfam03237 642492002577 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 642492002578 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492002579 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 642492002580 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 642492002581 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 642492002582 Phage capsid family; Region: Phage_capsid; pfam05065 642492002583 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 642492002584 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492002585 Bacteriophage holin; Region: Phage_holin_1; cl02344 642492002586 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 642492002587 amidase catalytic site [active] 642492002588 Zn binding residues [ion binding]; other site 642492002589 substrate binding site [chemical binding]; other site 642492002590 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 642492002591 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492002592 Zn2+ binding site [ion binding]; other site 642492002593 Mg2+ binding site [ion binding]; other site 642492002594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492002595 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 642492002596 active site 642492002597 Restriction endonuclease; Region: Mrr_cat; pfam04471 642492002598 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 642492002599 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 642492002600 ligand binding site [chemical binding]; other site 642492002601 flexible hinge region; other site 642492002602 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 642492002603 non-specific DNA interactions [nucleotide binding]; other site 642492002604 DNA binding site [nucleotide binding] 642492002605 sequence specific DNA binding site [nucleotide binding]; other site 642492002606 putative cAMP binding site [chemical binding]; other site 642492002607 DHHW protein; Region: DHHW; pfam14286 642492002608 DHHW protein; Region: DHHW; pfam14286 642492002609 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 642492002610 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 642492002611 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 642492002612 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 642492002613 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492002614 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 642492002615 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 642492002616 PYR/PP interface [polypeptide binding]; other site 642492002617 TPP binding site [chemical binding]; other site 642492002618 dimer interface [polypeptide binding]; other site 642492002619 substrate binding site [chemical binding]; other site 642492002620 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 642492002621 Domain of unknown function; Region: EKR; smart00890 642492002622 4Fe-4S binding domain; Region: Fer4_6; pfam12837 642492002623 4Fe-4S binding domain; Region: Fer4; pfam00037 642492002624 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 642492002625 TPP-binding site [chemical binding]; other site 642492002626 dimer interface [polypeptide binding]; other site 642492002627 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 642492002628 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 642492002629 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 642492002630 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 642492002631 dimer interface [polypeptide binding]; other site 642492002632 PYR/PP interface [polypeptide binding]; other site 642492002633 TPP binding site [chemical binding]; other site 642492002634 substrate binding site [chemical binding]; other site 642492002635 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 642492002636 Domain of unknown function; Region: EKR; smart00890 642492002637 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 642492002638 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 642492002639 TPP-binding site [chemical binding]; other site 642492002640 dimer interface [polypeptide binding]; other site 642492002641 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 642492002642 putative catalytic site [active] 642492002643 putative metal binding site [ion binding]; other site 642492002644 putative phosphate binding site [ion binding]; other site 642492002645 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 642492002646 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 642492002647 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492002648 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492002649 dimer interface [polypeptide binding]; other site 642492002650 conserved gate region; other site 642492002651 ABC-ATPase subunit interface; other site 642492002652 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492002653 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492002654 dimer interface [polypeptide binding]; other site 642492002655 conserved gate region; other site 642492002656 ABC-ATPase subunit interface; other site 642492002657 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492002658 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492002659 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492002660 putative alpha-glucosidase; Provisional; Region: PRK10658 642492002661 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 642492002662 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 642492002663 active site 642492002664 homotrimer interface [polypeptide binding]; other site 642492002665 catalytic site [active] 642492002666 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 642492002667 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492002668 Histidine kinase; Region: His_kinase; pfam06580 642492002669 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 642492002670 ATP binding site [chemical binding]; other site 642492002671 Mg2+ binding site [ion binding]; other site 642492002672 G-X-G motif; other site 642492002673 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 642492002674 active site 642492002675 phosphorylation site [posttranslational modification] 642492002676 intermolecular recognition site; other site 642492002677 dimerization interface [polypeptide binding]; other site 642492002678 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492002679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492002680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 642492002681 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 642492002682 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 642492002683 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 642492002684 dinuclear metal binding motif [ion binding]; other site 642492002685 transposase/IS protein; Provisional; Region: PRK09183 642492002686 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 642492002687 Walker A motif; other site 642492002688 ATP binding site [chemical binding]; other site 642492002689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 642492002690 Helix-turn-helix domain; Region: HTH_38; pfam13936 642492002691 Integrase core domain; Region: rve; pfam00665 642492002692 pyruvate kinase; Provisional; Region: PRK06354 642492002693 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 642492002694 domain interfaces; other site 642492002695 active site 642492002696 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 642492002697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 642492002698 Nucleoside recognition; Region: Gate; pfam07670 642492002699 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 642492002700 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 642492002701 nucleoside/Zn binding site; other site 642492002702 dimer interface [polypeptide binding]; other site 642492002703 catalytic motif [active] 642492002704 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492002705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492002706 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 642492002707 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 642492002708 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 642492002709 Walker A motif; other site 642492002710 ATP binding site [chemical binding]; other site 642492002711 DNA polymerase III subunit delta'; Validated; Region: PRK08485 642492002712 Walker B motif; other site 642492002713 arginine finger; other site 642492002714 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 642492002715 hypothetical protein; Validated; Region: PRK00153 642492002716 recombination protein RecR; Reviewed; Region: recR; PRK00076 642492002717 RecR protein; Region: RecR; pfam02132 642492002718 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 642492002719 putative active site [active] 642492002720 putative metal-binding site [ion binding]; other site 642492002721 tetramer interface [polypeptide binding]; other site 642492002722 Cache domain; Region: Cache_1; pfam02743 642492002723 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 642492002724 dimerization interface [polypeptide binding]; other site 642492002725 PAS fold; Region: PAS_3; pfam08447 642492002726 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 642492002727 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492002728 metal binding site [ion binding]; metal-binding site 642492002729 active site 642492002730 I-site; other site 642492002731 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 642492002732 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492002733 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492002734 Walker A/P-loop; other site 642492002735 ATP binding site [chemical binding]; other site 642492002736 Q-loop/lid; other site 642492002737 ABC transporter signature motif; other site 642492002738 Walker B; other site 642492002739 D-loop; other site 642492002740 H-loop/switch region; other site 642492002741 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 642492002742 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 642492002743 V-type ATP synthase subunit I; Validated; Region: PRK05771 642492002744 Flagellar protein FliS; Region: FliS; cl00654 642492002745 flagellin; Provisional; Region: PRK12804 642492002746 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492002747 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 642492002748 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 642492002749 SCP-2 sterol transfer family; Region: SCP2; pfam02036 642492002750 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 642492002751 HIT family signature motif; other site 642492002752 catalytic residue [active] 642492002753 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 642492002754 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 642492002755 active site 642492002756 dimer interface [polypeptide binding]; other site 642492002757 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 642492002758 Ligand Binding Site [chemical binding]; other site 642492002759 Molecular Tunnel; other site 642492002760 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 642492002761 Malic enzyme, N-terminal domain; Region: malic; pfam00390 642492002762 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 642492002763 putative NAD(P) binding site [chemical binding]; other site 642492002764 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 642492002765 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 642492002766 active site 642492002767 homodimer interface [polypeptide binding]; other site 642492002768 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492002769 dimer interface [polypeptide binding]; other site 642492002770 putative CheW interface [polypeptide binding]; other site 642492002771 CTP synthetase; Validated; Region: pyrG; PRK05380 642492002772 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 642492002773 Catalytic site [active] 642492002774 active site 642492002775 UTP binding site [chemical binding]; other site 642492002776 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 642492002777 active site 642492002778 putative oxyanion hole; other site 642492002779 catalytic triad [active] 642492002780 Domain of unknown function (DUF368); Region: DUF368; pfam04018 642492002781 MarR family; Region: MarR_2; pfam12802 642492002782 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492002783 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 642492002784 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 642492002785 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 642492002786 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 642492002787 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 642492002788 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 642492002789 active site 642492002790 dimer interface [polypeptide binding]; other site 642492002791 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 642492002792 dimer interface [polypeptide binding]; other site 642492002793 active site 642492002794 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 642492002795 HTH domain; Region: HTH_11; pfam08279 642492002796 3H domain; Region: 3H; pfam02829 642492002797 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 642492002798 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 642492002799 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 642492002800 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 642492002801 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 642492002802 glycogen synthase; Provisional; Region: glgA; PRK00654 642492002803 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 642492002804 ADP-binding pocket [chemical binding]; other site 642492002805 homodimer interface [polypeptide binding]; other site 642492002806 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 642492002807 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 642492002808 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 642492002809 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 642492002810 dimer interface [polypeptide binding]; other site 642492002811 ssDNA binding site [nucleotide binding]; other site 642492002812 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492002813 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 642492002814 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 642492002815 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 642492002816 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 642492002817 DHH family; Region: DHH; pfam01368 642492002818 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 642492002819 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 642492002820 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 642492002821 replicative DNA helicase; Region: DnaB; TIGR00665 642492002822 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 642492002823 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 642492002824 Walker A motif; other site 642492002825 ATP binding site [chemical binding]; other site 642492002826 Walker B motif; other site 642492002827 DNA binding loops [nucleotide binding] 642492002828 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 642492002829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492002830 Coenzyme A binding pocket [chemical binding]; other site 642492002831 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492002832 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 642492002833 DNA binding residues [nucleotide binding] 642492002834 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 642492002835 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 642492002836 FeS/SAM binding site; other site 642492002837 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 642492002838 Pyruvate formate lyase 1; Region: PFL1; cd01678 642492002839 coenzyme A binding site [chemical binding]; other site 642492002840 active site 642492002841 catalytic residues [active] 642492002842 glycine loop; other site 642492002843 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 642492002844 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492002845 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 642492002846 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 642492002847 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 642492002848 DRTGG domain; Region: DRTGG; pfam07085 642492002849 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 642492002850 DHHA2 domain; Region: DHHA2; pfam02833 642492002851 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 642492002852 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 642492002853 GDP-binding site [chemical binding]; other site 642492002854 ACT binding site; other site 642492002855 IMP binding site; other site 642492002856 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 642492002857 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 642492002858 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 642492002859 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 642492002860 active site 642492002861 PGAP1-like protein; Region: PGAP1; pfam07819 642492002862 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 642492002863 Serine hydrolase; Region: Ser_hydrolase; cl17834 642492002864 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 642492002865 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 642492002866 active site 642492002867 metal binding site [ion binding]; metal-binding site 642492002868 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 642492002869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492002870 DNA-binding site [nucleotide binding]; DNA binding site 642492002871 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 642492002872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492002873 homodimer interface [polypeptide binding]; other site 642492002874 catalytic residue [active] 642492002875 DNA replication protein DnaC; Validated; Region: PRK06835 642492002876 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 642492002877 Walker A motif; other site 642492002878 ATP binding site [chemical binding]; other site 642492002879 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 642492002880 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 642492002881 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492002882 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 642492002883 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492002884 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492002885 pur operon repressor; Provisional; Region: PRK09213 642492002886 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 642492002887 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492002888 active site 642492002889 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 642492002890 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 642492002891 ligand binding site; other site 642492002892 oligomer interface; other site 642492002893 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 642492002894 dimer interface [polypeptide binding]; other site 642492002895 N-terminal domain interface [polypeptide binding]; other site 642492002896 sulfate 1 binding site; other site 642492002897 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 642492002898 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 642492002899 ligand binding site; other site 642492002900 oligomer interface; other site 642492002901 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 642492002902 dimer interface [polypeptide binding]; other site 642492002903 N-terminal domain interface [polypeptide binding]; other site 642492002904 sulfate 1 binding site; other site 642492002905 regulatory protein SpoVG; Reviewed; Region: PRK13259 642492002906 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 642492002907 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 642492002908 Substrate binding site; other site 642492002909 Mg++ binding site; other site 642492002910 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 642492002911 active site 642492002912 substrate binding site [chemical binding]; other site 642492002913 CoA binding site [chemical binding]; other site 642492002914 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 642492002915 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 642492002916 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492002917 active site 642492002918 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 642492002919 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 642492002920 putative active site [active] 642492002921 catalytic residue [active] 642492002922 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 642492002923 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 642492002924 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 642492002925 ATP binding site [chemical binding]; other site 642492002926 putative Mg++ binding site [ion binding]; other site 642492002927 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 642492002928 nucleotide binding region [chemical binding]; other site 642492002929 ATP-binding site [chemical binding]; other site 642492002930 TRCF domain; Region: TRCF; pfam03461 642492002931 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 642492002932 stage V sporulation protein T; Region: spore_V_T; TIGR02851 642492002933 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 642492002934 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12333 642492002935 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 642492002936 homodimer interface [polypeptide binding]; other site 642492002937 metal binding site [ion binding]; metal-binding site 642492002938 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 642492002939 homodimer interface [polypeptide binding]; other site 642492002940 active site 642492002941 putative chemical substrate binding site [chemical binding]; other site 642492002942 metal binding site [ion binding]; metal-binding site 642492002943 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 642492002944 IHF - DNA interface [nucleotide binding]; other site 642492002945 IHF dimer interface [polypeptide binding]; other site 642492002946 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 642492002947 RNA binding surface [nucleotide binding]; other site 642492002948 YabP family; Region: YabP; cl06766 642492002949 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 642492002950 Septum formation initiator; Region: DivIC; cl17659 642492002951 peptide chain release factor 2; Validated; Region: prfB; PRK00578 642492002952 This domain is found in peptide chain release factors; Region: PCRF; smart00937 642492002953 RF-1 domain; Region: RF-1; pfam00472 642492002954 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 642492002955 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 642492002956 active site 642492002957 dimerization interface [polypeptide binding]; other site 642492002958 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 642492002959 active site 642492002960 metal binding site [ion binding]; metal-binding site 642492002961 homotetramer interface [polypeptide binding]; other site 642492002962 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 642492002963 putative active site [active] 642492002964 putative metal binding residues [ion binding]; other site 642492002965 signature motif; other site 642492002966 putative dimer interface [polypeptide binding]; other site 642492002967 putative phosphate binding site [ion binding]; other site 642492002968 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 642492002969 active site 642492002970 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 642492002971 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 642492002972 active site 642492002973 DJ-1 family protein; Region: not_thiJ; TIGR01383 642492002974 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 642492002975 conserved cys residue [active] 642492002976 trigger factor; Provisional; Region: tig; PRK01490 642492002977 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 642492002978 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 642492002979 Clp protease; Region: CLP_protease; pfam00574 642492002980 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 642492002981 oligomer interface [polypeptide binding]; other site 642492002982 active site residues [active] 642492002983 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 642492002984 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 642492002985 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 642492002986 Walker A motif; other site 642492002987 ATP binding site [chemical binding]; other site 642492002988 Walker B motif; other site 642492002989 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 642492002990 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 642492002991 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 642492002992 Walker A motif; other site 642492002993 ATP binding site [chemical binding]; other site 642492002994 Walker B motif; other site 642492002995 arginine finger; other site 642492002996 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 642492002997 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 642492002998 Found in ATP-dependent protease La (LON); Region: LON; smart00464 642492002999 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 642492003000 Walker A motif; other site 642492003001 ATP binding site [chemical binding]; other site 642492003002 Walker B motif; other site 642492003003 arginine finger; other site 642492003004 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 642492003005 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 642492003006 G1 box; other site 642492003007 GTP/Mg2+ binding site [chemical binding]; other site 642492003008 Switch I region; other site 642492003009 G2 box; other site 642492003010 G3 box; other site 642492003011 Switch II region; other site 642492003012 G4 box; other site 642492003013 G5 box; other site 642492003014 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 642492003015 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 642492003016 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492003017 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 642492003018 active site 642492003019 phosphorylation site [posttranslational modification] 642492003020 intermolecular recognition site; other site 642492003021 dimerization interface [polypeptide binding]; other site 642492003022 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 642492003023 DNA binding site [nucleotide binding] 642492003024 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 642492003025 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 642492003026 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 642492003027 dimer interface [polypeptide binding]; other site 642492003028 phosphorylation site [posttranslational modification] 642492003029 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 642492003030 ATP binding site [chemical binding]; other site 642492003031 Mg2+ binding site [ion binding]; other site 642492003032 G-X-G motif; other site 642492003033 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 642492003034 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 642492003035 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 642492003036 PBP superfamily domain; Region: PBP_like_2; cl17296 642492003037 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492003038 PBP superfamily domain; Region: PBP_like_2; cl17296 642492003039 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 642492003040 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 642492003041 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003042 dimer interface [polypeptide binding]; other site 642492003043 conserved gate region; other site 642492003044 putative PBP binding loops; other site 642492003045 ABC-ATPase subunit interface; other site 642492003046 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 642492003047 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003048 dimer interface [polypeptide binding]; other site 642492003049 conserved gate region; other site 642492003050 putative PBP binding loops; other site 642492003051 ABC-ATPase subunit interface; other site 642492003052 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 642492003053 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 642492003054 Walker A/P-loop; other site 642492003055 ATP binding site [chemical binding]; other site 642492003056 Q-loop/lid; other site 642492003057 ABC transporter signature motif; other site 642492003058 Walker B; other site 642492003059 D-loop; other site 642492003060 H-loop/switch region; other site 642492003061 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 642492003062 PhoU domain; Region: PhoU; pfam01895 642492003063 PhoU domain; Region: PhoU; pfam01895 642492003064 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 642492003065 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 642492003066 active site 642492003067 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 642492003068 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492003069 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 642492003070 dimerization interface [polypeptide binding]; other site 642492003071 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492003072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492003073 dimer interface [polypeptide binding]; other site 642492003074 putative CheW interface [polypeptide binding]; other site 642492003075 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 642492003076 intersubunit interface [polypeptide binding]; other site 642492003077 active site 642492003078 catalytic residue [active] 642492003079 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 642492003080 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 642492003081 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 642492003082 active site 642492003083 phosphorylation site [posttranslational modification] 642492003084 intermolecular recognition site; other site 642492003085 dimerization interface [polypeptide binding]; other site 642492003086 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 642492003087 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 642492003088 dimer interface [polypeptide binding]; other site 642492003089 motif 1; other site 642492003090 active site 642492003091 motif 2; other site 642492003092 motif 3; other site 642492003093 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 642492003094 anticodon binding site; other site 642492003095 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 642492003096 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 642492003097 dimer interface [polypeptide binding]; other site 642492003098 anticodon binding site; other site 642492003099 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 642492003100 homodimer interface [polypeptide binding]; other site 642492003101 motif 1; other site 642492003102 active site 642492003103 motif 2; other site 642492003104 GAD domain; Region: GAD; pfam02938 642492003105 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 642492003106 motif 3; other site 642492003107 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 642492003108 active site 642492003109 catalytic site [active] 642492003110 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 642492003111 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 642492003112 active site 642492003113 catalytic tetrad [active] 642492003114 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 642492003115 pantoate--beta-alanine ligase; Region: panC; TIGR00018 642492003116 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492003117 active site 642492003118 nucleotide binding site [chemical binding]; other site 642492003119 HIGH motif; other site 642492003120 KMSKS motif; other site 642492003121 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 642492003122 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 642492003123 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 642492003124 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 642492003125 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 642492003126 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 642492003127 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492003128 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492003129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003130 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 642492003131 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 642492003132 ABC-ATPase subunit interface; other site 642492003133 dimer interface [polypeptide binding]; other site 642492003134 putative PBP binding regions; other site 642492003135 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 642492003136 ABC-ATPase subunit interface; other site 642492003137 dimer interface [polypeptide binding]; other site 642492003138 putative PBP binding regions; other site 642492003139 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 642492003140 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492003141 Walker A/P-loop; other site 642492003142 ATP binding site [chemical binding]; other site 642492003143 Q-loop/lid; other site 642492003144 ABC transporter signature motif; other site 642492003145 Walker B; other site 642492003146 D-loop; other site 642492003147 H-loop/switch region; other site 642492003148 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 642492003149 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 642492003150 putative ligand binding residues [chemical binding]; other site 642492003151 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 642492003152 dimerization interface [polypeptide binding]; other site 642492003153 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492003154 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492003155 dimer interface [polypeptide binding]; other site 642492003156 putative CheW interface [polypeptide binding]; other site 642492003157 Predicted membrane protein [Function unknown]; Region: COG4818 642492003158 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 642492003159 active site 642492003160 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 642492003161 active site 642492003162 Int/Topo IB signature motif; other site 642492003163 DNA binding site [nucleotide binding] 642492003164 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492003165 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 642492003166 non-specific DNA binding site [nucleotide binding]; other site 642492003167 salt bridge; other site 642492003168 sequence-specific DNA binding site [nucleotide binding]; other site 642492003169 large terminase protein; Provisional; Region: 17; PHA02533 642492003170 Terminase-like family; Region: Terminase_6; pfam03237 642492003171 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492003172 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 642492003173 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 642492003174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 642492003175 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 642492003176 S-layer homology domain; Region: SLH; pfam00395 642492003177 S-layer homology domain; Region: SLH; pfam00395 642492003178 hybrid cluster protein; Provisional; Region: PRK05290 642492003179 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 642492003180 ACS interaction site; other site 642492003181 CODH interaction site; other site 642492003182 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 642492003183 hybrid metal cluster; other site 642492003184 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 642492003185 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 642492003186 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 642492003187 ligand binding site [chemical binding]; other site 642492003188 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 642492003189 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 642492003190 active site 642492003191 Zn binding site [ion binding]; other site 642492003192 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492003193 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 642492003194 active site residue [active] 642492003195 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 642492003196 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492003197 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492003198 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 642492003199 active site residue [active] 642492003200 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492003201 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 642492003202 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 642492003203 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 642492003204 active site turn [active] 642492003205 phosphorylation site [posttranslational modification] 642492003206 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 642492003207 HPr interaction site; other site 642492003208 glycerol kinase (GK) interaction site [polypeptide binding]; other site 642492003209 active site 642492003210 phosphorylation site [posttranslational modification] 642492003211 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 642492003212 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 642492003213 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 642492003214 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492003215 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 642492003216 Soluble P-type ATPase [General function prediction only]; Region: COG4087 642492003217 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 642492003218 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 642492003219 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 642492003220 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 642492003221 YhhN-like protein; Region: YhhN; pfam07947 642492003222 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 642492003223 synthetase active site [active] 642492003224 NTP binding site [chemical binding]; other site 642492003225 metal binding site [ion binding]; metal-binding site 642492003226 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 642492003227 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 642492003228 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 642492003229 Glucuronate isomerase; Region: UxaC; pfam02614 642492003230 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 642492003231 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492003232 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492003233 DNA binding site [nucleotide binding] 642492003234 domain linker motif; other site 642492003235 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 642492003236 dimerization interface [polypeptide binding]; other site 642492003237 ligand binding site [chemical binding]; other site 642492003238 altronate oxidoreductase; Provisional; Region: PRK03643 642492003239 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 642492003240 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 642492003241 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 642492003242 galactarate dehydratase; Region: galactar-dH20; TIGR03248 642492003243 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 642492003244 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 642492003245 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 642492003246 NADP binding site [chemical binding]; other site 642492003247 homodimer interface [polypeptide binding]; other site 642492003248 active site 642492003249 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 642492003250 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 642492003251 Pectinesterase; Region: Pectinesterase; pfam01095 642492003252 putative pectinesterase; Region: PLN02432; cl01911 642492003253 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492003254 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492003255 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492003256 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492003257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003258 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003259 dimer interface [polypeptide binding]; other site 642492003260 conserved gate region; other site 642492003261 putative PBP binding loops; other site 642492003262 ABC-ATPase subunit interface; other site 642492003263 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492003264 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003265 dimer interface [polypeptide binding]; other site 642492003266 conserved gate region; other site 642492003267 putative PBP binding loops; other site 642492003268 ABC-ATPase subunit interface; other site 642492003269 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 642492003270 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 642492003271 Cupin domain; Region: Cupin_2; pfam07883 642492003272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003273 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492003274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003275 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 642492003276 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 642492003277 putative metal binding site [ion binding]; other site 642492003278 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 642492003279 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 642492003280 putative metal binding site [ion binding]; other site 642492003281 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 642492003282 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 642492003283 putative metal binding site [ion binding]; other site 642492003284 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492003285 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 642492003286 active site 642492003287 phosphorylation site [posttranslational modification] 642492003288 intermolecular recognition site; other site 642492003289 dimerization interface [polypeptide binding]; other site 642492003290 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 642492003291 DNA binding site [nucleotide binding] 642492003292 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 642492003293 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492003294 active site 642492003295 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 642492003296 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492003297 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 642492003298 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 642492003299 active site 642492003300 motif I; other site 642492003301 motif II; other site 642492003302 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492003303 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 642492003304 Walker A/P-loop; other site 642492003305 ATP binding site [chemical binding]; other site 642492003306 Q-loop/lid; other site 642492003307 ABC transporter signature motif; other site 642492003308 Walker B; other site 642492003309 D-loop; other site 642492003310 H-loop/switch region; other site 642492003311 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 642492003312 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 642492003313 substrate binding pocket [chemical binding]; other site 642492003314 membrane-bound complex binding site; other site 642492003315 hinge residues; other site 642492003316 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 642492003317 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003318 dimer interface [polypeptide binding]; other site 642492003319 conserved gate region; other site 642492003320 putative PBP binding loops; other site 642492003321 ABC-ATPase subunit interface; other site 642492003322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003323 dimer interface [polypeptide binding]; other site 642492003324 conserved gate region; other site 642492003325 putative PBP binding loops; other site 642492003326 ABC-ATPase subunit interface; other site 642492003327 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 642492003328 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 642492003329 Protein of unknown function DUF45; Region: DUF45; pfam01863 642492003330 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 642492003331 active site 642492003332 catalytic residues [active] 642492003333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492003334 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 642492003335 dimer interface [polypeptide binding]; other site 642492003336 phosphorylation site [posttranslational modification] 642492003337 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 642492003338 ATP binding site [chemical binding]; other site 642492003339 Mg2+ binding site [ion binding]; other site 642492003340 G-X-G motif; other site 642492003341 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492003342 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 642492003343 active site 642492003344 phosphorylation site [posttranslational modification] 642492003345 intermolecular recognition site; other site 642492003346 dimerization interface [polypeptide binding]; other site 642492003347 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 642492003348 DNA binding site [nucleotide binding] 642492003349 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 642492003350 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 642492003351 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 642492003352 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 642492003353 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 642492003354 putative deacylase active site [active] 642492003355 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 642492003356 active site 642492003357 putative catalytic site [active] 642492003358 DNA binding site [nucleotide binding] 642492003359 putative phosphate binding site [ion binding]; other site 642492003360 metal binding site A [ion binding]; metal-binding site 642492003361 AP binding site [nucleotide binding]; other site 642492003362 metal binding site B [ion binding]; metal-binding site 642492003363 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492003364 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 642492003365 dimer interface [polypeptide binding]; other site 642492003366 active site 642492003367 metal binding site [ion binding]; metal-binding site 642492003368 glutathione binding site [chemical binding]; other site 642492003369 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 642492003370 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492003371 threonine dehydratase; Provisional; Region: PRK08198 642492003372 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 642492003373 tetramer interface [polypeptide binding]; other site 642492003374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003375 catalytic residue [active] 642492003376 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 642492003377 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 642492003378 DHH family; Region: DHH; pfam01368 642492003379 Predicted transcriptional regulators [Transcription]; Region: COG1695 642492003380 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 642492003381 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 642492003382 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 642492003383 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 642492003384 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 642492003385 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 642492003386 EDD domain protein, DegV family; Region: DegV; TIGR00762 642492003387 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 642492003388 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 642492003389 Uncharacterized conserved protein [Function unknown]; Region: COG2966 642492003390 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 642492003391 MoxR-like ATPases [General function prediction only]; Region: COG0714 642492003392 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 642492003393 Walker A motif; other site 642492003394 ATP binding site [chemical binding]; other site 642492003395 Walker B motif; other site 642492003396 arginine finger; other site 642492003397 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 642492003398 Protein of unknown function DUF58; Region: DUF58; pfam01882 642492003399 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 642492003400 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 642492003401 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 642492003402 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 642492003403 dimer interface [polypeptide binding]; other site 642492003404 PYR/PP interface [polypeptide binding]; other site 642492003405 TPP binding site [chemical binding]; other site 642492003406 substrate binding site [chemical binding]; other site 642492003407 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 642492003408 TPP-binding site; other site 642492003409 4Fe-4S binding domain; Region: Fer4; pfam00037 642492003410 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 642492003411 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 642492003412 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 642492003413 dimer interface [polypeptide binding]; other site 642492003414 active site 642492003415 glycine-pyridoxal phosphate binding site [chemical binding]; other site 642492003416 folate binding site [chemical binding]; other site 642492003417 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 642492003418 elongation factor G; Reviewed; Region: PRK12740 642492003419 G1 box; other site 642492003420 putative GEF interaction site [polypeptide binding]; other site 642492003421 GTP/Mg2+ binding site [chemical binding]; other site 642492003422 Switch I region; other site 642492003423 G2 box; other site 642492003424 G3 box; other site 642492003425 Switch II region; other site 642492003426 G4 box; other site 642492003427 G5 box; other site 642492003428 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 642492003429 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 642492003430 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 642492003431 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492003432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003433 DNA-binding site [nucleotide binding]; DNA binding site 642492003434 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492003435 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492003436 Walker A/P-loop; other site 642492003437 ATP binding site [chemical binding]; other site 642492003438 Q-loop/lid; other site 642492003439 ABC transporter signature motif; other site 642492003440 Walker B; other site 642492003441 D-loop; other site 642492003442 H-loop/switch region; other site 642492003443 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 642492003444 Transglycosylase; Region: Transgly; pfam00912 642492003445 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 642492003446 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 642492003447 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 642492003448 Predicted membrane protein [General function prediction only]; Region: COG4194 642492003449 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492003450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003451 DNA-binding site [nucleotide binding]; DNA binding site 642492003452 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 642492003453 classical (c) SDRs; Region: SDR_c; cd05233 642492003454 NAD(P) binding site [chemical binding]; other site 642492003455 active site 642492003456 peroxiredoxin; Provisional; Region: PRK13189 642492003457 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 642492003458 dimer interface [polypeptide binding]; other site 642492003459 decamer (pentamer of dimers) interface [polypeptide binding]; other site 642492003460 catalytic triad [active] 642492003461 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492003462 active site 642492003463 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 642492003464 ligand binding site [chemical binding]; other site 642492003465 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492003466 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492003467 Walker A/P-loop; other site 642492003468 ATP binding site [chemical binding]; other site 642492003469 Q-loop/lid; other site 642492003470 ABC transporter signature motif; other site 642492003471 Walker B; other site 642492003472 D-loop; other site 642492003473 H-loop/switch region; other site 642492003474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003475 DNA-binding site [nucleotide binding]; DNA binding site 642492003476 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 642492003477 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 642492003478 dimer interface [polypeptide binding]; other site 642492003479 active site 642492003480 metal binding site [ion binding]; metal-binding site 642492003481 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 642492003482 nudix motif; other site 642492003483 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 642492003484 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 642492003485 Na binding site [ion binding]; other site 642492003486 putative substrate binding site [chemical binding]; other site 642492003487 cytosine deaminase; Provisional; Region: PRK09230 642492003488 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 642492003489 active site 642492003490 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 642492003491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 642492003492 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 642492003493 Fic/DOC family; Region: Fic; cl00960 642492003494 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 642492003495 putative active site [active] 642492003496 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 642492003497 MgtE intracellular N domain; Region: MgtE_N; pfam03448 642492003498 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 642492003499 Divalent cation transporter; Region: MgtE; pfam01769 642492003500 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 642492003501 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 642492003502 peptide binding site [polypeptide binding]; other site 642492003503 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 642492003504 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003505 dimer interface [polypeptide binding]; other site 642492003506 conserved gate region; other site 642492003507 putative PBP binding loops; other site 642492003508 ABC-ATPase subunit interface; other site 642492003509 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 642492003510 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 642492003511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003512 dimer interface [polypeptide binding]; other site 642492003513 conserved gate region; other site 642492003514 putative PBP binding loops; other site 642492003515 ABC-ATPase subunit interface; other site 642492003516 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 642492003517 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 642492003518 Walker A/P-loop; other site 642492003519 ATP binding site [chemical binding]; other site 642492003520 Q-loop/lid; other site 642492003521 ABC transporter signature motif; other site 642492003522 Walker B; other site 642492003523 D-loop; other site 642492003524 H-loop/switch region; other site 642492003525 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 642492003526 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 642492003527 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 642492003528 Walker A/P-loop; other site 642492003529 ATP binding site [chemical binding]; other site 642492003530 Q-loop/lid; other site 642492003531 ABC transporter signature motif; other site 642492003532 Walker B; other site 642492003533 D-loop; other site 642492003534 H-loop/switch region; other site 642492003535 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 642492003536 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 642492003537 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 642492003538 catalytic triad [active] 642492003539 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 642492003540 B12 binding site [chemical binding]; other site 642492003541 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 642492003542 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492003543 FeS/SAM binding site; other site 642492003544 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 642492003545 B12 binding site [chemical binding]; other site 642492003546 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 642492003547 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 642492003548 FeS/SAM binding site; other site 642492003549 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 642492003550 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 642492003551 B12 binding site [chemical binding]; other site 642492003552 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 642492003553 FeS/SAM binding site; other site 642492003554 GH3 auxin-responsive promoter; Region: GH3; pfam03321 642492003555 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 642492003556 B12 binding site [chemical binding]; other site 642492003557 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 642492003558 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 642492003559 FeS/SAM binding site; other site 642492003560 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 642492003561 B12 binding site [chemical binding]; other site 642492003562 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 642492003563 Predicted transcriptional regulators [Transcription]; Region: COG1695 642492003564 Transcriptional regulator PadR-like family; Region: PadR; cl17335 642492003565 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 642492003566 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 642492003567 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 642492003568 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 642492003569 HIGH motif; other site 642492003570 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 642492003571 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 642492003572 active site 642492003573 KMSKS motif; other site 642492003574 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 642492003575 tRNA binding surface [nucleotide binding]; other site 642492003576 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492003577 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 642492003578 substrate binding site [chemical binding]; other site 642492003579 dimer interface [polypeptide binding]; other site 642492003580 ATP binding site [chemical binding]; other site 642492003581 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 642492003582 aspartoacylase; Provisional; Region: PRK02259 642492003583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 642492003584 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 642492003585 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 642492003586 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 642492003587 active site 642492003588 catalytic residues [active] 642492003589 metal binding site [ion binding]; metal-binding site 642492003590 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 642492003591 tartrate dehydrogenase; Region: TTC; TIGR02089 642492003592 Cupin domain; Region: Cupin_2; cl17218 642492003593 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492003594 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003595 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 642492003596 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492003597 active site 642492003598 catalytic site [active] 642492003599 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 642492003600 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 642492003601 putative substrate translocation pore; other site 642492003602 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492003603 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492003604 putative active site [active] 642492003605 putative metal binding site [ion binding]; other site 642492003606 AAA domain; Region: AAA_33; pfam13671 642492003607 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 642492003608 active site 642492003609 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 642492003610 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492003611 active site 642492003612 HIGH motif; other site 642492003613 nucleotide binding site [chemical binding]; other site 642492003614 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 642492003615 KMSKS motif; other site 642492003616 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 642492003617 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 642492003618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492003619 Walker A/P-loop; other site 642492003620 ATP binding site [chemical binding]; other site 642492003621 Q-loop/lid; other site 642492003622 ABC transporter signature motif; other site 642492003623 Walker B; other site 642492003624 D-loop; other site 642492003625 H-loop/switch region; other site 642492003626 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 642492003627 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492003628 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492003629 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 642492003630 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 642492003631 catalytic core [active] 642492003632 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 642492003633 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 642492003634 ligand binding site [chemical binding]; other site 642492003635 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492003636 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 642492003637 dimerization interface [polypeptide binding]; other site 642492003638 Histidine kinase; Region: His_kinase; pfam06580 642492003639 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 642492003640 ATP binding site [chemical binding]; other site 642492003641 Mg2+ binding site [ion binding]; other site 642492003642 G-X-G motif; other site 642492003643 Response regulator receiver domain; Region: Response_reg; pfam00072 642492003644 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 642492003645 active site 642492003646 phosphorylation site [posttranslational modification] 642492003647 intermolecular recognition site; other site 642492003648 dimerization interface [polypeptide binding]; other site 642492003649 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492003650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492003651 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 642492003652 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 642492003653 putative ligand binding site [chemical binding]; other site 642492003654 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 642492003655 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 642492003656 putative ligand binding site [chemical binding]; other site 642492003657 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 642492003658 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 642492003659 Walker A/P-loop; other site 642492003660 ATP binding site [chemical binding]; other site 642492003661 Q-loop/lid; other site 642492003662 ABC transporter signature motif; other site 642492003663 Walker B; other site 642492003664 D-loop; other site 642492003665 H-loop/switch region; other site 642492003666 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 642492003667 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492003668 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 642492003669 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 642492003670 TM-ABC transporter signature motif; other site 642492003671 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 642492003672 DHH family; Region: DHH; pfam01368 642492003673 DHHA1 domain; Region: DHHA1; pfam02272 642492003674 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 642492003675 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 642492003676 trimer interface [polypeptide binding]; other site 642492003677 active site 642492003678 substrate binding site [chemical binding]; other site 642492003679 CoA binding site [chemical binding]; other site 642492003680 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 642492003681 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 642492003682 active site 642492003683 HIGH motif; other site 642492003684 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 642492003685 KMSKS motif; other site 642492003686 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 642492003687 tRNA binding surface [nucleotide binding]; other site 642492003688 anticodon binding site; other site 642492003689 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 642492003690 dimerization interface [polypeptide binding]; other site 642492003691 active site 642492003692 metal binding site [ion binding]; metal-binding site 642492003693 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 642492003694 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 642492003695 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 642492003696 RNA polymerase factor sigma-70; Validated; Region: PRK08295 642492003697 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492003698 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 642492003699 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 642492003700 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 642492003701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003702 catalytic residue [active] 642492003703 hypothetical protein; Provisional; Region: PRK05590 642492003704 SEC-C motif; Region: SEC-C; pfam02810 642492003705 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 642492003706 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; pfam01992 642492003707 V-type ATP synthase subunit I; Validated; Region: PRK05771 642492003708 Urea transporter; Region: UT; cl01829 642492003709 ATP synthase subunit C; Region: ATP-synt_C; cl00466 642492003710 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; pfam01990 642492003711 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 642492003712 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 642492003713 V-type ATP synthase subunit A; Provisional; Region: PRK04192 642492003714 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 642492003715 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 642492003716 Walker A motif/ATP binding site; other site 642492003717 Walker B motif; other site 642492003718 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492003719 V-type ATP synthase subunit B; Provisional; Region: PRK04196 642492003720 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 642492003721 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 642492003722 Walker A motif homologous position; other site 642492003723 Walker B motif; other site 642492003724 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492003725 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 642492003726 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 642492003727 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 642492003728 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492003729 metal binding site 2 [ion binding]; metal-binding site 642492003730 putative DNA binding helix; other site 642492003731 metal binding site 1 [ion binding]; metal-binding site 642492003732 dimer interface [polypeptide binding]; other site 642492003733 structural Zn2+ binding site [ion binding]; other site 642492003734 Stage II sporulation protein; Region: SpoIID; pfam08486 642492003735 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 642492003736 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 642492003737 DNA polymerase II large subunit; Validated; Region: PRK04023 642492003738 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492003739 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 642492003740 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 642492003741 GAF domain; Region: GAF_3; pfam13492 642492003742 GAF domain; Region: GAF_2; pfam13185 642492003743 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 642492003744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492003745 metal binding site [ion binding]; metal-binding site 642492003746 active site 642492003747 I-site; other site 642492003748 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 642492003749 helicase 45; Provisional; Region: PTZ00424 642492003750 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 642492003751 ATP binding site [chemical binding]; other site 642492003752 putative Mg++ binding site [ion binding]; other site 642492003753 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 642492003754 nucleotide binding region [chemical binding]; other site 642492003755 ATP-binding site [chemical binding]; other site 642492003756 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 642492003757 MgtC family; Region: MgtC; pfam02308 642492003758 S-layer homology domain; Region: SLH; pfam00395 642492003759 S-layer homology domain; Region: SLH; pfam00395 642492003760 agmatinase; Region: agmatinase; TIGR01230 642492003761 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 642492003762 putative active site [active] 642492003763 Mn binding site [ion binding]; other site 642492003764 spermidine synthase; Provisional; Region: PRK00811 642492003765 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 642492003766 S-adenosylmethionine binding site [chemical binding]; other site 642492003767 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 642492003768 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 642492003769 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492003770 substrate binding site [chemical binding]; other site 642492003771 ATP binding site [chemical binding]; other site 642492003772 S-layer homology domain; Region: SLH; pfam00395 642492003773 RecX family; Region: RecX; cl00936 642492003774 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 642492003775 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 642492003776 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 642492003777 DNA binding site [nucleotide binding] 642492003778 active site 642492003779 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 642492003780 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492003781 putative active site [active] 642492003782 putative metal binding site [ion binding]; other site 642492003783 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 642492003784 heterotetramer interface [polypeptide binding]; other site 642492003785 active site pocket [active] 642492003786 cleavage site 642492003787 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 642492003788 feedback inhibition sensing region; other site 642492003789 homohexameric interface [polypeptide binding]; other site 642492003790 nucleotide binding site [chemical binding]; other site 642492003791 N-acetyl-L-glutamate binding site [chemical binding]; other site 642492003792 acetylornithine aminotransferase; Provisional; Region: PRK02627 642492003793 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 642492003794 inhibitor-cofactor binding pocket; inhibition site 642492003795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003796 catalytic residue [active] 642492003797 Protein of unknown function (DUF554); Region: DUF554; pfam04474 642492003798 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 642492003799 active site 642492003800 metal binding site [ion binding]; metal-binding site 642492003801 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 642492003802 Putative amidase domain; Region: Amidase_6; pfam12671 642492003803 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 642492003804 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 642492003805 substrate binding pocket [chemical binding]; other site 642492003806 membrane-bound complex binding site; other site 642492003807 hinge residues; other site 642492003808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003809 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492003810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492003811 Walker A/P-loop; other site 642492003812 ATP binding site [chemical binding]; other site 642492003813 Q-loop/lid; other site 642492003814 ABC transporter signature motif; other site 642492003815 Walker B; other site 642492003816 D-loop; other site 642492003817 H-loop/switch region; other site 642492003818 putative glycosyl transferase; Provisional; Region: PRK10073 642492003819 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 642492003820 active site 642492003821 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 642492003822 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492003823 active site 642492003824 HIGH motif; other site 642492003825 nucleotide binding site [chemical binding]; other site 642492003826 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 642492003827 active site 642492003828 KMSKS motif; other site 642492003829 Putative amidase domain; Region: Amidase_6; pfam12671 642492003830 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 642492003831 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 642492003832 Int/Topo IB signature motif; other site 642492003833 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492003834 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 642492003835 non-specific DNA binding site [nucleotide binding]; other site 642492003836 salt bridge; other site 642492003837 sequence-specific DNA binding site [nucleotide binding]; other site 642492003838 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492003839 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 642492003840 non-specific DNA binding site [nucleotide binding]; other site 642492003841 salt bridge; other site 642492003842 sequence-specific DNA binding site [nucleotide binding]; other site 642492003843 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492003844 D5 N terminal like; Region: D5_N; pfam08706 642492003845 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 642492003846 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492003847 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 642492003848 catalytic residues [active] 642492003849 catalytic nucleophile [active] 642492003850 Presynaptic Site I dimer interface [polypeptide binding]; other site 642492003851 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 642492003852 Synaptic Flat tetramer interface [polypeptide binding]; other site 642492003853 Synaptic Site I dimer interface [polypeptide binding]; other site 642492003854 DNA binding site [nucleotide binding] 642492003855 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; cl17393 642492003856 DNA-binding interface [nucleotide binding]; DNA binding site 642492003857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492003858 Transposase; Region: HTH_Tnp_1; pfam01527 642492003859 putative transposase OrfB; Reviewed; Region: PHA02517 642492003860 HTH-like domain; Region: HTH_21; pfam13276 642492003861 Integrase core domain; Region: rve; pfam00665 642492003862 Integrase core domain; Region: rve_3; pfam13683 642492003863 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 642492003864 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 642492003865 Uncharacterized conserved protein [Function unknown]; Region: COG4933 642492003866 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 642492003867 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 642492003868 Putative serine esterase (DUF676); Region: DUF676; pfam05057 642492003869 HTH-like domain; Region: HTH_21; pfam13276 642492003870 CAAX protease self-immunity; Region: Abi; pfam02517 642492003871 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 642492003872 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 642492003873 motif II; other site 642492003874 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 642492003875 GAF domain; Region: GAF_3; pfam13492 642492003876 GAF domain; Region: GAF_2; pfam13185 642492003877 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 642492003878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492003879 metal binding site [ion binding]; metal-binding site 642492003880 active site 642492003881 I-site; other site 642492003882 Tetratricopeptide repeat; Region: TPR_16; pfam13432 642492003883 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 642492003884 binding surface 642492003885 Tetratricopeptide repeat; Region: TPR_16; pfam13432 642492003886 TPR motif; other site 642492003887 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 642492003888 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 642492003889 active site 642492003890 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492003891 Transcriptional regulators [Transcription]; Region: GntR; COG1802 642492003892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492003893 DNA-binding site [nucleotide binding]; DNA binding site 642492003894 FCD domain; Region: FCD; pfam07729 642492003895 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 642492003896 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 642492003897 Walker A motif; other site 642492003898 ATP binding site [chemical binding]; other site 642492003899 Walker B motif; other site 642492003900 arginine finger; other site 642492003901 Peptidase family M41; Region: Peptidase_M41; pfam01434 642492003902 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492003903 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492003904 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 642492003905 active site 642492003906 phosphorylation site [posttranslational modification] 642492003907 intermolecular recognition site; other site 642492003908 dimerization interface [polypeptide binding]; other site 642492003909 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 642492003910 DNA binding site [nucleotide binding] 642492003911 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492003912 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 642492003913 dimer interface [polypeptide binding]; other site 642492003914 phosphorylation site [posttranslational modification] 642492003915 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 642492003916 ATP binding site [chemical binding]; other site 642492003917 Mg2+ binding site [ion binding]; other site 642492003918 G-X-G motif; other site 642492003919 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492003920 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 642492003921 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 642492003922 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 642492003923 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 642492003924 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 642492003925 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 642492003926 Double zinc ribbon; Region: DZR; pfam12773 642492003927 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 642492003928 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 642492003929 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 642492003930 putative ligand binding site [chemical binding]; other site 642492003931 putative NAD binding site [chemical binding]; other site 642492003932 catalytic site [active] 642492003933 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 642492003934 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003935 dimer interface [polypeptide binding]; other site 642492003936 conserved gate region; other site 642492003937 putative PBP binding loops; other site 642492003938 ABC-ATPase subunit interface; other site 642492003939 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 642492003940 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 642492003941 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492003942 dimer interface [polypeptide binding]; other site 642492003943 conserved gate region; other site 642492003944 putative PBP binding loops; other site 642492003945 ABC-ATPase subunit interface; other site 642492003946 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 642492003947 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 642492003948 Walker A/P-loop; other site 642492003949 ATP binding site [chemical binding]; other site 642492003950 Q-loop/lid; other site 642492003951 ABC transporter signature motif; other site 642492003952 Walker B; other site 642492003953 D-loop; other site 642492003954 H-loop/switch region; other site 642492003955 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492003956 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 642492003957 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 642492003958 Walker A/P-loop; other site 642492003959 ATP binding site [chemical binding]; other site 642492003960 Q-loop/lid; other site 642492003961 ABC transporter signature motif; other site 642492003962 Walker B; other site 642492003963 D-loop; other site 642492003964 H-loop/switch region; other site 642492003965 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 642492003966 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 642492003967 peptide binding site [polypeptide binding]; other site 642492003968 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 642492003969 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 642492003970 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 642492003971 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 642492003972 intersubunit interface [polypeptide binding]; other site 642492003973 active site 642492003974 zinc binding site [ion binding]; other site 642492003975 Na+ binding site [ion binding]; other site 642492003976 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 642492003977 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 642492003978 transmembrane helices; other site 642492003979 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 642492003980 binding surface 642492003981 TPR repeat; Region: TPR_11; pfam13414 642492003982 TPR motif; other site 642492003983 TPR repeat; Region: TPR_11; pfam13414 642492003984 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 642492003985 binding surface 642492003986 TPR motif; other site 642492003987 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 642492003988 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492003989 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 642492003990 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 642492003991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492003992 homodimer interface [polypeptide binding]; other site 642492003993 catalytic residue [active] 642492003994 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 642492003995 dimerization interface [polypeptide binding]; other site 642492003996 putative DNA binding site [nucleotide binding]; other site 642492003997 putative Zn2+ binding site [ion binding]; other site 642492003998 TPR repeat; Region: TPR_11; pfam13414 642492003999 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 642492004000 binding surface 642492004001 TPR motif; other site 642492004002 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 642492004003 binding surface 642492004004 Tetratricopeptide repeat; Region: TPR_16; pfam13432 642492004005 TPR motif; other site 642492004006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 642492004007 Tetratricopeptide repeat; Region: TPR_6; pfam13174 642492004008 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 642492004009 anti sigma factor interaction site; other site 642492004010 regulatory phosphorylation site [posttranslational modification]; other site 642492004011 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 642492004012 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 642492004013 ATP binding site [chemical binding]; other site 642492004014 Mg2+ binding site [ion binding]; other site 642492004015 G-X-G motif; other site 642492004016 sporulation sigma factor SigF; Validated; Region: PRK05572 642492004017 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492004018 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492004019 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 642492004020 DNA binding residues [nucleotide binding] 642492004021 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 642492004022 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 642492004023 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 642492004024 dimerization interface [polypeptide binding]; other site 642492004025 ATP binding site [chemical binding]; other site 642492004026 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 642492004027 dimerization interface [polypeptide binding]; other site 642492004028 ATP binding site [chemical binding]; other site 642492004029 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 642492004030 putative active site [active] 642492004031 catalytic triad [active] 642492004032 AIR carboxylase; Region: AIRC; pfam00731 642492004033 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 642492004034 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 642492004035 ATP binding site [chemical binding]; other site 642492004036 active site 642492004037 substrate binding site [chemical binding]; other site 642492004038 amidophosphoribosyltransferase; Provisional; Region: PRK05793 642492004039 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 642492004040 active site 642492004041 tetramer interface [polypeptide binding]; other site 642492004042 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492004043 active site 642492004044 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 642492004045 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 642492004046 dimerization interface [polypeptide binding]; other site 642492004047 putative ATP binding site [chemical binding]; other site 642492004048 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 642492004049 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 642492004050 active site 642492004051 substrate binding site [chemical binding]; other site 642492004052 cosubstrate binding site; other site 642492004053 catalytic site [active] 642492004054 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 642492004055 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 642492004056 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 642492004057 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 642492004058 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 642492004059 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 642492004060 Int/Topo IB signature motif; other site 642492004061 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492004062 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 642492004063 non-specific DNA binding site [nucleotide binding]; other site 642492004064 salt bridge; other site 642492004065 sequence-specific DNA binding site [nucleotide binding]; other site 642492004066 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492004067 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 642492004068 non-specific DNA binding site [nucleotide binding]; other site 642492004069 salt bridge; other site 642492004070 sequence-specific DNA binding site [nucleotide binding]; other site 642492004071 Helix-turn-helix domain; Region: HTH_17; cl17695 642492004072 hypothetical protein; Validated; Region: PRK08116 642492004073 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 642492004074 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 642492004075 DNA binding residues [nucleotide binding] 642492004076 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 642492004077 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 642492004078 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 642492004079 Protein of unknown function, DUF488; Region: DUF488; pfam04343 642492004080 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 642492004081 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492004082 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492004083 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 642492004084 NlpC/P60 family; Region: NLPC_P60; pfam00877 642492004085 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 642492004086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492004087 DNA-binding site [nucleotide binding]; DNA binding site 642492004088 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 642492004089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004090 homodimer interface [polypeptide binding]; other site 642492004091 catalytic residue [active] 642492004092 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 642492004093 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 642492004094 dimer interface [polypeptide binding]; other site 642492004095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004096 catalytic residue [active] 642492004097 serine O-acetyltransferase; Region: cysE; TIGR01172 642492004098 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 642492004099 trimer interface [polypeptide binding]; other site 642492004100 active site 642492004101 substrate binding site [chemical binding]; other site 642492004102 CoA binding site [chemical binding]; other site 642492004103 AzlC protein; Region: AzlC; cl00570 642492004104 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 642492004105 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 642492004106 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 642492004107 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 642492004108 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 642492004109 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 642492004110 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 642492004111 Acyltransferase family; Region: Acyl_transf_3; pfam01757 642492004112 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 642492004113 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 642492004114 alanine racemase; Reviewed; Region: alr; PRK00053 642492004115 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492004116 catalytic residue [active] 642492004117 Domain of unknown function (DUF1874); Region: DUF1874; cl07531 642492004118 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 642492004119 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 642492004120 binding surface 642492004121 TPR motif; other site 642492004122 TPR repeat; Region: TPR_11; pfam13414 642492004123 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 642492004124 binding surface 642492004125 TPR motif; other site 642492004126 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 642492004127 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 642492004128 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 642492004129 active site 642492004130 catalytic tetrad [active] 642492004131 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 642492004132 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492004133 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 642492004134 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 642492004135 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 642492004136 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492004137 HAMP domain; Region: HAMP; pfam00672 642492004138 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492004139 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492004140 dimer interface [polypeptide binding]; other site 642492004141 putative CheW interface [polypeptide binding]; other site 642492004142 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492004143 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492004144 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492004145 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 642492004146 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492004147 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 642492004148 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 642492004149 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 642492004150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 642492004151 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 642492004152 MarR family; Region: MarR_2; pfam12802 642492004153 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 642492004154 Transglycosylase; Region: Transgly; pfam00912 642492004155 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 642492004156 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492004157 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492004158 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 642492004159 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 642492004160 active site 642492004161 catalytic tetrad [active] 642492004162 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 642492004163 Isochorismatase family; Region: Isochorismatase; pfam00857 642492004164 catalytic triad [active] 642492004165 conserved cis-peptide bond; other site 642492004166 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 642492004167 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492004168 active site 642492004169 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 642492004170 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 642492004171 active site 642492004172 NAD synthetase; Reviewed; Region: nadE; PRK02628 642492004173 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 642492004174 multimer interface [polypeptide binding]; other site 642492004175 active site 642492004176 catalytic triad [active] 642492004177 protein interface 1 [polypeptide binding]; other site 642492004178 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 642492004179 homodimer interface [polypeptide binding]; other site 642492004180 NAD binding pocket [chemical binding]; other site 642492004181 ATP binding pocket [chemical binding]; other site 642492004182 Mg binding site [ion binding]; other site 642492004183 active-site loop [active] 642492004184 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 642492004185 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 642492004186 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 642492004187 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 642492004188 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 642492004189 hypothetical protein; Validated; Region: PRK06217 642492004190 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492004191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492004192 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492004193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492004194 Coenzyme A binding pocket [chemical binding]; other site 642492004195 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 642492004196 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 642492004197 homodimer interface [polypeptide binding]; other site 642492004198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004199 catalytic residue [active] 642492004200 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 642492004201 spermidine synthase; Provisional; Region: PRK00811 642492004202 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 642492004203 S-adenosylmethionine binding site [chemical binding]; other site 642492004204 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 642492004205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004206 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 642492004207 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 642492004208 dimer interface [polypeptide binding]; other site 642492004209 active site 642492004210 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492004211 catalytic residues [active] 642492004212 substrate binding site [chemical binding]; other site 642492004213 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 642492004214 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492004215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492004216 Walker A/P-loop; other site 642492004217 ATP binding site [chemical binding]; other site 642492004218 Q-loop/lid; other site 642492004219 ABC transporter signature motif; other site 642492004220 Walker B; other site 642492004221 D-loop; other site 642492004222 H-loop/switch region; other site 642492004223 ABC transporter; Region: ABC_tran_2; pfam12848 642492004224 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492004225 Ion channel; Region: Ion_trans_2; pfam07885 642492004226 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 642492004227 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 642492004228 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 642492004229 DHHA1 domain; Region: DHHA1; pfam02272 642492004230 methionine aminopeptidase; Provisional; Region: PRK12318 642492004231 SEC-C motif; Region: SEC-C; pfam02810 642492004232 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 642492004233 active site 642492004234 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492004235 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492004236 Walker A/P-loop; other site 642492004237 ATP binding site [chemical binding]; other site 642492004238 Q-loop/lid; other site 642492004239 ABC transporter signature motif; other site 642492004240 Walker B; other site 642492004241 D-loop; other site 642492004242 H-loop/switch region; other site 642492004243 Predicted amidohydrolase [General function prediction only]; Region: COG0388 642492004244 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 642492004245 active site 642492004246 catalytic triad [active] 642492004247 dimer interface [polypeptide binding]; other site 642492004248 Predicted amidohydrolase [General function prediction only]; Region: COG0388 642492004249 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 642492004250 active site 642492004251 catalytic triad [active] 642492004252 dimer interface [polypeptide binding]; other site 642492004253 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 642492004254 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 642492004255 NodB motif; other site 642492004256 active site 642492004257 catalytic site [active] 642492004258 Zn binding site [ion binding]; other site 642492004259 Class I aldolases; Region: Aldolase_Class_I; cl17187 642492004260 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 642492004261 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492004262 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 642492004263 active site 642492004264 phosphorylation site [posttranslational modification] 642492004265 intermolecular recognition site; other site 642492004266 dimerization interface [polypeptide binding]; other site 642492004267 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 642492004268 DNA binding site [nucleotide binding] 642492004269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492004270 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 642492004271 ATP binding site [chemical binding]; other site 642492004272 Mg2+ binding site [ion binding]; other site 642492004273 G-X-G motif; other site 642492004274 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492004275 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492004276 Walker A/P-loop; other site 642492004277 ATP binding site [chemical binding]; other site 642492004278 Q-loop/lid; other site 642492004279 ABC transporter signature motif; other site 642492004280 Walker B; other site 642492004281 D-loop; other site 642492004282 H-loop/switch region; other site 642492004283 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492004284 FtsX-like permease family; Region: FtsX; pfam02687 642492004285 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 642492004286 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 642492004287 active site 642492004288 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492004289 active site 642492004290 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492004291 Helix-turn-helix domain; Region: HTH_18; pfam12833 642492004292 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 642492004293 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492004294 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492004295 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492004296 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 642492004297 active site 642492004298 catalytic triad [active] 642492004299 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 642492004300 nudix motif; other site 642492004301 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 642492004302 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 642492004303 putative dimer interface [polypeptide binding]; other site 642492004304 [2Fe-2S] cluster binding site [ion binding]; other site 642492004305 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 642492004306 dimer interface [polypeptide binding]; other site 642492004307 [2Fe-2S] cluster binding site [ion binding]; other site 642492004308 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 642492004309 SLBB domain; Region: SLBB; pfam10531 642492004310 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 642492004311 4Fe-4S binding domain; Region: Fer4; pfam00037 642492004312 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 642492004313 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 642492004314 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 642492004315 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 642492004316 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 642492004317 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492004318 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 642492004319 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 642492004320 dimer interface [polypeptide binding]; other site 642492004321 [2Fe-2S] cluster binding site [ion binding]; other site 642492004322 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 642492004323 G5 domain; Region: G5; pfam07501 642492004324 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 642492004325 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492004326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 642492004327 Zn2+ binding site [ion binding]; other site 642492004328 Mg2+ binding site [ion binding]; other site 642492004329 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492004330 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 642492004331 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 642492004332 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004333 AMIN domain; Region: AMIN; pfam11741 642492004334 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 642492004335 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 642492004336 active site 642492004337 metal binding site [ion binding]; metal-binding site 642492004338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 642492004339 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 642492004340 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 642492004341 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 642492004342 Substrate-binding site [chemical binding]; other site 642492004343 Substrate specificity [chemical binding]; other site 642492004344 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 642492004345 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 642492004346 Walker A/P-loop; other site 642492004347 ATP binding site [chemical binding]; other site 642492004348 Q-loop/lid; other site 642492004349 ABC transporter signature motif; other site 642492004350 Walker B; other site 642492004351 D-loop; other site 642492004352 H-loop/switch region; other site 642492004353 NIL domain; Region: NIL; pfam09383 642492004354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492004355 dimer interface [polypeptide binding]; other site 642492004356 conserved gate region; other site 642492004357 putative PBP binding loops; other site 642492004358 ABC-ATPase subunit interface; other site 642492004359 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 642492004360 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 642492004361 Quinolinate synthetase A protein; Region: NadA; pfam02445 642492004362 L-aspartate oxidase; Provisional; Region: PRK06175 642492004363 FAD binding domain; Region: FAD_binding_2; pfam00890 642492004364 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 642492004365 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 642492004366 dimerization interface [polypeptide binding]; other site 642492004367 active site 642492004368 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 642492004369 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 642492004370 transmembrane helices; other site 642492004371 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 642492004372 SurA N-terminal domain; Region: SurA_N_3; cl07813 642492004373 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 642492004374 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 642492004375 dimer interface [polypeptide binding]; other site 642492004376 ADP-ribose binding site [chemical binding]; other site 642492004377 active site 642492004378 nudix motif; other site 642492004379 metal binding site [ion binding]; metal-binding site 642492004380 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 642492004381 putative active site [active] 642492004382 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492004383 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 642492004384 hypothetical protein; Provisional; Region: PRK00955 642492004385 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 642492004386 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492004387 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492004388 Zn2+ binding site [ion binding]; other site 642492004389 Mg2+ binding site [ion binding]; other site 642492004390 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 642492004391 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 642492004392 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492004393 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 642492004394 TM-ABC transporter signature motif; other site 642492004395 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492004396 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 642492004397 TM-ABC transporter signature motif; other site 642492004398 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 642492004399 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 642492004400 Walker A/P-loop; other site 642492004401 ATP binding site [chemical binding]; other site 642492004402 Q-loop/lid; other site 642492004403 ABC transporter signature motif; other site 642492004404 Walker B; other site 642492004405 D-loop; other site 642492004406 H-loop/switch region; other site 642492004407 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 642492004408 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492004409 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 642492004410 ligand binding site [chemical binding]; other site 642492004411 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492004412 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 642492004413 ligand binding site [chemical binding]; other site 642492004414 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004415 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 642492004416 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 642492004417 active site 642492004418 metal binding site [ion binding]; metal-binding site 642492004419 hypothetical protein; Provisional; Region: PRK04435 642492004420 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492004421 homoserine dehydrogenase; Provisional; Region: PRK06349 642492004422 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 642492004423 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 642492004424 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 642492004425 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 642492004426 aspartate kinase; Reviewed; Region: PRK06635 642492004427 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 642492004428 putative nucleotide binding site [chemical binding]; other site 642492004429 putative catalytic residues [active] 642492004430 putative Mg ion binding site [ion binding]; other site 642492004431 putative aspartate binding site [chemical binding]; other site 642492004432 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 642492004433 putative allosteric regulatory site; other site 642492004434 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 642492004435 homoserine kinase; Provisional; Region: PRK01212 642492004436 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 642492004437 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 642492004438 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492004439 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 642492004440 ATP binding site [chemical binding]; other site 642492004441 Mg2+ binding site [ion binding]; other site 642492004442 G-X-G motif; other site 642492004443 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492004444 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 642492004445 dimer interface [polypeptide binding]; other site 642492004446 phosphorylation site [posttranslational modification] 642492004447 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 642492004448 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 642492004449 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 642492004450 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 642492004451 RNA binding site [nucleotide binding]; other site 642492004452 Predicted membrane protein [Function unknown]; Region: COG3601 642492004453 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492004454 putative transposase OrfB; Reviewed; Region: PHA02517 642492004455 HTH-like domain; Region: HTH_21; pfam13276 642492004456 Integrase core domain; Region: rve; pfam00665 642492004457 Integrase core domain; Region: rve_2; pfam13333 642492004458 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492004459 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492004460 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492004461 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 642492004462 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 642492004463 Glycoprotease family; Region: Peptidase_M22; pfam00814 642492004464 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 642492004465 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492004466 Coenzyme A binding pocket [chemical binding]; other site 642492004467 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004468 AAA domain; Region: AAA_32; pfam13654 642492004469 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 642492004470 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 642492004471 PAS domain; Region: PAS_9; pfam13426 642492004472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 642492004473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492004474 metal binding site [ion binding]; metal-binding site 642492004475 active site 642492004476 I-site; other site 642492004477 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 642492004478 transcription termination factor Rho; Provisional; Region: rho; PRK09376 642492004479 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 642492004480 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 642492004481 RNA binding site [nucleotide binding]; other site 642492004482 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 642492004483 multimer interface [polypeptide binding]; other site 642492004484 Walker A motif; other site 642492004485 ATP binding site [chemical binding]; other site 642492004486 Walker B motif; other site 642492004487 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 642492004488 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 642492004489 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 642492004490 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 642492004491 S-adenosylmethionine binding site [chemical binding]; other site 642492004492 peptide chain release factor 1; Validated; Region: prfA; PRK00591 642492004493 This domain is found in peptide chain release factors; Region: PCRF; smart00937 642492004494 RF-1 domain; Region: RF-1; pfam00472 642492004495 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 642492004496 putative metal binding site [ion binding]; other site 642492004497 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 642492004498 Cellulose binding domain; Region: CBM_3; cl03026 642492004499 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 642492004500 Domain of unknown function DUF21; Region: DUF21; pfam01595 642492004501 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 642492004502 Transporter associated domain; Region: CorC_HlyC; pfam03471 642492004503 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492004504 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 642492004505 FeS/SAM binding site; other site 642492004506 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 642492004507 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 642492004508 EDD domain protein, DegV family; Region: DegV; TIGR00762 642492004509 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 642492004510 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 642492004511 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492004512 excinuclease ABC subunit B; Provisional; Region: PRK05298 642492004513 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 642492004514 ATP binding site [chemical binding]; other site 642492004515 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 642492004516 nucleotide binding region [chemical binding]; other site 642492004517 ATP-binding site [chemical binding]; other site 642492004518 Ultra-violet resistance protein B; Region: UvrB; pfam12344 642492004519 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 642492004520 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 642492004521 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 642492004522 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 642492004523 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 642492004524 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492004525 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 642492004526 EDD domain protein, DegV family; Region: DegV; TIGR00762 642492004527 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 642492004528 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 642492004529 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 642492004530 ATP-binding site [chemical binding]; other site 642492004531 Sugar specificity; other site 642492004532 Pyrimidine base specificity; other site 642492004533 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004534 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 642492004535 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 642492004536 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 642492004537 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 642492004538 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 642492004539 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 642492004540 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492004541 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 642492004542 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 642492004543 GIY-YIG motif/motif A; other site 642492004544 active site 642492004545 catalytic site [active] 642492004546 putative DNA binding site [nucleotide binding]; other site 642492004547 metal binding site [ion binding]; metal-binding site 642492004548 UvrB/uvrC motif; Region: UVR; pfam02151 642492004549 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 642492004550 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 642492004551 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 642492004552 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 642492004553 Hpr binding site; other site 642492004554 active site 642492004555 homohexamer subunit interaction site [polypeptide binding]; other site 642492004556 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 642492004557 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 642492004558 nucleotide binding site [chemical binding]; other site 642492004559 YcxB-like protein; Region: YcxB; pfam14317 642492004560 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 642492004561 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 642492004562 Metal-binding active site; metal-binding site 642492004563 Bacterial SH3 domain; Region: SH3_3; cl17532 642492004564 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492004565 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 642492004566 NlpC/P60 family; Region: NLPC_P60; pfam00877 642492004567 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492004568 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492004569 dimer interface [polypeptide binding]; other site 642492004570 putative CheW interface [polypeptide binding]; other site 642492004571 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 642492004572 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 642492004573 Coenzyme A binding pocket [chemical binding]; other site 642492004574 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 642492004575 dimerization interface [polypeptide binding]; other site 642492004576 putative DNA binding site [nucleotide binding]; other site 642492004577 putative Zn2+ binding site [ion binding]; other site 642492004578 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492004579 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 642492004580 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 642492004581 Low molecular weight phosphatase family; Region: LMWPc; cd00115 642492004582 active site 642492004583 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 642492004584 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 642492004585 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 642492004586 Part of AAA domain; Region: AAA_19; pfam13245 642492004587 Family description; Region: UvrD_C_2; pfam13538 642492004588 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 642492004589 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 642492004590 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 642492004591 active site 642492004592 motif I; other site 642492004593 motif II; other site 642492004594 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 642492004595 putative peroxiredoxin; Provisional; Region: PRK13190 642492004596 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 642492004597 Glyco_18 domain; Region: Glyco_18; smart00636 642492004598 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 642492004599 active site 642492004600 heat shock protein 90; Provisional; Region: PRK05218 642492004601 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 642492004602 G-X-G motif; other site 642492004603 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 642492004604 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 642492004605 dimerization interface 3.5A [polypeptide binding]; other site 642492004606 active site 642492004607 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 642492004608 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 642492004609 catalytic triad [active] 642492004610 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 642492004611 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 642492004612 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 642492004613 protein binding site [polypeptide binding]; other site 642492004614 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492004615 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 642492004616 active site 642492004617 phosphorylation site [posttranslational modification] 642492004618 intermolecular recognition site; other site 642492004619 dimerization interface [polypeptide binding]; other site 642492004620 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 642492004621 DNA binding site [nucleotide binding] 642492004622 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 642492004623 dimer interface [polypeptide binding]; other site 642492004624 phosphorylation site [posttranslational modification] 642492004625 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 642492004626 ATP binding site [chemical binding]; other site 642492004627 Mg2+ binding site [ion binding]; other site 642492004628 G-X-G motif; other site 642492004629 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 642492004630 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 642492004631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 642492004632 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 642492004633 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 642492004634 glutamate racemase; Provisional; Region: PRK00865 642492004635 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 642492004636 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492004637 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492004638 Zn2+ binding site [ion binding]; other site 642492004639 Mg2+ binding site [ion binding]; other site 642492004640 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492004641 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492004642 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 642492004643 GIY-YIG motif/motif A; other site 642492004644 putative active site [active] 642492004645 putative metal binding site [ion binding]; other site 642492004646 Uncharacterized conserved protein [Function unknown]; Region: COG1284 642492004647 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492004648 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492004649 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 642492004650 Predicted transcriptional regulator [Transcription]; Region: COG1959 642492004651 Transcriptional regulator; Region: Rrf2; cl17282 642492004652 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 642492004653 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 642492004654 dimer interface [polypeptide binding]; other site 642492004655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004656 catalytic residue [active] 642492004657 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 642492004658 ligand binding site [chemical binding]; other site 642492004659 active site 642492004660 UGI interface [polypeptide binding]; other site 642492004661 catalytic site [active] 642492004662 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 642492004663 dimer interface [polypeptide binding]; other site 642492004664 active site 642492004665 Protein of unknown function, DUF606; Region: DUF606; pfam04657 642492004666 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 642492004667 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 642492004668 NAD(P) binding site [chemical binding]; other site 642492004669 LDH/MDH dimer interface [polypeptide binding]; other site 642492004670 substrate binding site [chemical binding]; other site 642492004671 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 642492004672 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 642492004673 FeS/SAM binding site; other site 642492004674 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 642492004675 ATP cone domain; Region: ATP-cone; pfam03477 642492004676 Class III ribonucleotide reductase; Region: RNR_III; cd01675 642492004677 effector binding site; other site 642492004678 active site 642492004679 Zn binding site [ion binding]; other site 642492004680 glycine loop; other site 642492004681 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 642492004682 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 642492004683 active site 642492004684 catalytic site [active] 642492004685 substrate binding site [chemical binding]; other site 642492004686 Protein of unknown function (DUF3072); Region: DUF3072; pfam11272 642492004687 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492004688 active site 642492004689 catalytic triad [active] 642492004690 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 642492004691 active site 642492004692 catalytic residues [active] 642492004693 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492004694 active site 642492004695 catalytic triad [active] 642492004696 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492004697 active site 642492004698 catalytic triad [active] 642492004699 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 642492004700 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492004701 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492004702 Walker A/P-loop; other site 642492004703 ATP binding site [chemical binding]; other site 642492004704 Q-loop/lid; other site 642492004705 ABC transporter signature motif; other site 642492004706 Walker B; other site 642492004707 D-loop; other site 642492004708 H-loop/switch region; other site 642492004709 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 642492004710 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 642492004711 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492004712 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492004713 FtsX-like permease family; Region: FtsX; pfam02687 642492004714 Stage II sporulation protein; Region: SpoIID; pfam08486 642492004715 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 642492004716 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 642492004717 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492004718 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492004719 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 642492004720 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 642492004721 GGGtGRT protein; Region: GGGtGRT; pfam14057 642492004722 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 642492004723 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 642492004724 inhibitor-cofactor binding pocket; inhibition site 642492004725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492004726 catalytic residue [active] 642492004727 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 642492004728 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 642492004729 substrate binding site; other site 642492004730 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 642492004731 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 642492004732 NAD binding site [chemical binding]; other site 642492004733 homotetramer interface [polypeptide binding]; other site 642492004734 homodimer interface [polypeptide binding]; other site 642492004735 substrate binding site [chemical binding]; other site 642492004736 active site 642492004737 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 642492004738 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492004739 PYR/PP interface [polypeptide binding]; other site 642492004740 dimer interface [polypeptide binding]; other site 642492004741 TPP binding site [chemical binding]; other site 642492004742 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 642492004743 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 642492004744 TPP-binding site [chemical binding]; other site 642492004745 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 642492004746 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 642492004747 Ligand binding site; other site 642492004748 Putative Catalytic site; other site 642492004749 DXD motif; other site 642492004750 Predicted membrane protein [Function unknown]; Region: COG2246 642492004751 GtrA-like protein; Region: GtrA; pfam04138 642492004752 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 642492004753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004754 NAD(P) binding site [chemical binding]; other site 642492004755 active site 642492004756 Methyltransferase domain; Region: Methyltransf_23; pfam13489 642492004757 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 642492004758 S-adenosylmethionine binding site [chemical binding]; other site 642492004759 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 642492004760 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 642492004761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004762 NAD(P) binding site [chemical binding]; other site 642492004763 active site 642492004764 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 642492004765 active site 642492004766 catalytic residues [active] 642492004767 metal binding site [ion binding]; metal-binding site 642492004768 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 642492004769 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 642492004770 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 642492004771 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 642492004772 Walker A motif; other site 642492004773 ATP binding site [chemical binding]; other site 642492004774 Walker B motif; other site 642492004775 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 642492004776 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 642492004777 Walker A motif; other site 642492004778 ATP binding site [chemical binding]; other site 642492004779 Walker B motif; other site 642492004780 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 642492004781 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 642492004782 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 642492004783 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 642492004784 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 642492004785 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 642492004786 Competence protein A; Region: Competence_A; pfam11104 642492004787 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 642492004788 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 642492004789 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 642492004790 active site 642492004791 motif I; other site 642492004792 motif II; other site 642492004793 shikimate kinase; Reviewed; Region: aroK; PRK00131 642492004794 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 642492004795 ADP binding site [chemical binding]; other site 642492004796 magnesium binding site [ion binding]; other site 642492004797 putative shikimate binding site; other site 642492004798 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 642492004799 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 642492004800 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 642492004801 active site 642492004802 elongation factor P; Validated; Region: PRK00529 642492004803 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 642492004804 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 642492004805 RNA binding site [nucleotide binding]; other site 642492004806 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 642492004807 RNA binding site [nucleotide binding]; other site 642492004808 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 642492004809 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 642492004810 Walker A motif; other site 642492004811 ATP binding site [chemical binding]; other site 642492004812 Walker B motif; other site 642492004813 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 642492004814 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 642492004815 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 642492004816 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 642492004817 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 642492004818 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 642492004819 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 642492004820 Asp23 family; Region: Asp23; pfam03780 642492004821 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 642492004822 putative RNA binding site [nucleotide binding]; other site 642492004823 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 642492004824 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 642492004825 generic binding surface II; other site 642492004826 generic binding surface I; other site 642492004827 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 642492004828 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 642492004829 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 642492004830 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 642492004831 substrate binding pocket [chemical binding]; other site 642492004832 chain length determination region; other site 642492004833 substrate-Mg2+ binding site; other site 642492004834 catalytic residues [active] 642492004835 aspartate-rich region 1; other site 642492004836 active site lid residues [active] 642492004837 aspartate-rich region 2; other site 642492004838 Divergent PAP2 family; Region: DUF212; pfam02681 642492004839 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 642492004840 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 642492004841 TPP-binding site; other site 642492004842 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 642492004843 PYR/PP interface [polypeptide binding]; other site 642492004844 dimer interface [polypeptide binding]; other site 642492004845 TPP binding site [chemical binding]; other site 642492004846 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492004847 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 642492004848 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 642492004849 RNA binding surface [nucleotide binding]; other site 642492004850 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 642492004851 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 642492004852 ATP-NAD kinase; Region: NAD_kinase; pfam01513 642492004853 arginine repressor; Provisional; Region: argR; PRK00441 642492004854 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 642492004855 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 642492004856 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 642492004857 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 642492004858 Walker A/P-loop; other site 642492004859 ATP binding site [chemical binding]; other site 642492004860 Q-loop/lid; other site 642492004861 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 642492004862 ABC transporter signature motif; other site 642492004863 Walker B; other site 642492004864 D-loop; other site 642492004865 H-loop/switch region; other site 642492004866 CcmE; Region: CcmE; cl00994 642492004867 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 642492004868 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 642492004869 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 642492004870 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 642492004871 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 642492004872 active site 642492004873 phosphorylation site [posttranslational modification] 642492004874 intermolecular recognition site; other site 642492004875 dimerization interface [polypeptide binding]; other site 642492004876 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 642492004877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492004878 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492004879 Coenzyme A binding pocket [chemical binding]; other site 642492004880 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 642492004881 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 642492004882 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492004883 CBD_II domain; Region: CBD_II; smart00637 642492004884 Cellulose binding domain; Region: CBM_2; pfam00553 642492004885 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 642492004886 dimer interface [polypeptide binding]; other site 642492004887 active site 642492004888 citrylCoA binding site [chemical binding]; other site 642492004889 Citrate synthase; Region: Citrate_synt; pfam00285 642492004890 oxalacetate/citrate binding site [chemical binding]; other site 642492004891 coenzyme A binding site [chemical binding]; other site 642492004892 catalytic triad [active] 642492004893 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 642492004894 Domain of unknown function (DUF814); Region: DUF814; pfam05670 642492004895 hypothetical protein; Provisional; Region: PRK11820 642492004896 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 642492004897 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 642492004898 hypothetical protein; Provisional; Region: PRK04323 642492004899 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 642492004900 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 642492004901 catalytic site [active] 642492004902 G-X2-G-X-G-K; other site 642492004903 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 642492004904 primosome assembly protein PriA; Validated; Region: PRK05580 642492004905 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 642492004906 ATP binding site [chemical binding]; other site 642492004907 putative Mg++ binding site [ion binding]; other site 642492004908 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 642492004909 nucleotide binding region [chemical binding]; other site 642492004910 ATP-binding site [chemical binding]; other site 642492004911 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 642492004912 active site 642492004913 catalytic residues [active] 642492004914 metal binding site [ion binding]; metal-binding site 642492004915 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 642492004916 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 642492004917 putative active site [active] 642492004918 substrate binding site [chemical binding]; other site 642492004919 putative cosubstrate binding site; other site 642492004920 catalytic site [active] 642492004921 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 642492004922 substrate binding site [chemical binding]; other site 642492004923 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 642492004924 16S rRNA methyltransferase B; Provisional; Region: PRK14902 642492004925 NusB family; Region: NusB; pfam01029 642492004926 putative RNA binding site [nucleotide binding]; other site 642492004927 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 642492004928 S-adenosylmethionine binding site [chemical binding]; other site 642492004929 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 642492004930 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 642492004931 FeS/SAM binding site; other site 642492004932 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 642492004933 Protein phosphatase 2C; Region: PP2C; pfam00481 642492004934 active site 642492004935 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 642492004936 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 642492004937 active site 642492004938 ATP binding site [chemical binding]; other site 642492004939 substrate binding site [chemical binding]; other site 642492004940 activation loop (A-loop); other site 642492004941 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 642492004942 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 642492004943 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 642492004944 GTPase RsgA; Reviewed; Region: PRK00098 642492004945 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 642492004946 RNA binding site [nucleotide binding]; other site 642492004947 homodimer interface [polypeptide binding]; other site 642492004948 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 642492004949 GTPase/Zn-binding domain interface [polypeptide binding]; other site 642492004950 GTP/Mg2+ binding site [chemical binding]; other site 642492004951 G4 box; other site 642492004952 G5 box; other site 642492004953 G1 box; other site 642492004954 Switch I region; other site 642492004955 G2 box; other site 642492004956 G3 box; other site 642492004957 Switch II region; other site 642492004958 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 642492004959 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 642492004960 substrate binding site [chemical binding]; other site 642492004961 hexamer interface [polypeptide binding]; other site 642492004962 metal binding site [ion binding]; metal-binding site 642492004963 Thiamine pyrophosphokinase; Region: TPK; cd07995 642492004964 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 642492004965 active site 642492004966 dimerization interface [polypeptide binding]; other site 642492004967 thiamine binding site [chemical binding]; other site 642492004968 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 642492004969 Asp23 family; Region: Asp23; pfam03780 642492004970 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 642492004971 DAK2 domain; Region: Dak2; pfam02734 642492004972 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 642492004973 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 642492004974 ssDNA binding site; other site 642492004975 generic binding surface II; other site 642492004976 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 642492004977 ATP binding site [chemical binding]; other site 642492004978 putative Mg++ binding site [ion binding]; other site 642492004979 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 642492004980 nucleotide binding region [chemical binding]; other site 642492004981 ATP-binding site [chemical binding]; other site 642492004982 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 642492004983 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 642492004984 S-adenosylmethionine binding site [chemical binding]; other site 642492004985 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 642492004986 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 642492004987 active site 642492004988 (T/H)XGH motif; other site 642492004989 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 642492004990 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492004991 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 642492004992 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492004993 Peptidase M16C associated; Region: M16C_assoc; pfam08367 642492004994 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 642492004995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492004996 NAD(P) binding site [chemical binding]; other site 642492004997 active site 642492004998 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 642492004999 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 642492005000 RNA binding surface [nucleotide binding]; other site 642492005001 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 642492005002 active site 642492005003 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 642492005004 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 642492005005 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 642492005006 P-loop containing region of AAA domain; Region: AAA_29; cl17516 642492005007 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 642492005008 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 642492005009 metal ion-dependent adhesion site (MIDAS); other site 642492005010 SpoVR like protein; Region: SpoVR; pfam04293 642492005011 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 642492005012 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 642492005013 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492005014 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492005015 carbohydrate binding site [chemical binding]; other site 642492005016 pullulanase, type I; Region: pulA_typeI; TIGR02104 642492005017 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 642492005018 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 642492005019 Ca binding site [ion binding]; other site 642492005020 active site 642492005021 catalytic site [active] 642492005022 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 642492005023 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492005024 carbohydrate binding site [chemical binding]; other site 642492005025 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492005026 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 642492005027 active site 642492005028 catalytic site [active] 642492005029 S-layer homology domain; Region: SLH; pfam00395 642492005030 S-layer homology domain; Region: SLH; pfam00395 642492005031 S-layer homology domain; Region: SLH; pfam00395 642492005032 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 642492005033 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 642492005034 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 642492005035 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 642492005036 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 642492005037 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 642492005038 active site 642492005039 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 642492005040 oligoendopeptidase F; Region: pepF; TIGR00181 642492005041 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 642492005042 active site 642492005043 Zn binding site [ion binding]; other site 642492005044 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_3; cd08770 642492005045 SxDxEG motif; other site 642492005046 putative active site [active] 642492005047 putative metal binding site [ion binding]; other site 642492005048 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 642492005049 catalytic core [active] 642492005050 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 642492005051 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 642492005052 thymidine kinase; Provisional; Region: PRK04296 642492005053 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 642492005054 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 642492005055 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 642492005056 dihydroorotase; Validated; Region: pyrC; PRK09357 642492005057 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 642492005058 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 642492005059 active site 642492005060 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 642492005061 active site 642492005062 dimer interface [polypeptide binding]; other site 642492005063 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 642492005064 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 642492005065 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 642492005066 catalytic site [active] 642492005067 subunit interface [polypeptide binding]; other site 642492005068 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 642492005069 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492005070 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 642492005071 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 642492005072 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492005073 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492005074 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 642492005075 IMP binding site; other site 642492005076 dimer interface [polypeptide binding]; other site 642492005077 interdomain contacts; other site 642492005078 partial ornithine binding site; other site 642492005079 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 642492005080 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 642492005081 FAD binding pocket [chemical binding]; other site 642492005082 FAD binding motif [chemical binding]; other site 642492005083 phosphate binding motif [ion binding]; other site 642492005084 beta-alpha-beta structure motif; other site 642492005085 NAD binding pocket [chemical binding]; other site 642492005086 Iron coordination center [ion binding]; other site 642492005087 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 642492005088 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 642492005089 heterodimer interface [polypeptide binding]; other site 642492005090 active site 642492005091 FMN binding site [chemical binding]; other site 642492005092 homodimer interface [polypeptide binding]; other site 642492005093 substrate binding site [chemical binding]; other site 642492005094 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492005095 active site 642492005096 short chain dehydrogenase; Provisional; Region: PRK06701 642492005097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492005098 NAD(P) binding site [chemical binding]; other site 642492005099 active site 642492005100 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 642492005101 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 642492005102 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 642492005103 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 642492005104 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 642492005105 Int/Topo IB signature motif; other site 642492005106 Domain of unknown function (DUF955); Region: DUF955; cl01076 642492005107 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 642492005108 non-specific DNA binding site [nucleotide binding]; other site 642492005109 salt bridge; other site 642492005110 sequence-specific DNA binding site [nucleotide binding]; other site 642492005111 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 642492005112 non-specific DNA binding site [nucleotide binding]; other site 642492005113 salt bridge; other site 642492005114 sequence-specific DNA binding site [nucleotide binding]; other site 642492005115 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492005116 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 642492005117 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 642492005118 Helix-turn-helix domain; Region: HTH_36; pfam13730 642492005119 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 642492005120 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 642492005121 DNA polymerase III beta subunit, central domain; Region: DNA_pol3_beta_2; pfam02767 642492005122 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 642492005123 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 642492005124 cofactor binding site; other site 642492005125 DNA binding site [nucleotide binding] 642492005126 substrate interaction site [chemical binding]; other site 642492005127 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 642492005128 active site 642492005129 catalytic residues [active] 642492005130 DNA binding site [nucleotide binding] 642492005131 Int/Topo IB signature motif; other site 642492005132 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 642492005133 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 642492005134 active site 642492005135 DNA binding site [nucleotide binding] 642492005136 Int/Topo IB signature motif; other site 642492005137 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 642492005138 active site 642492005139 AAA domain; Region: AAA_33; pfam13671 642492005140 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 642492005141 Phage portal protein; Region: Phage_portal; pfam04860 642492005142 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 642492005143 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 642492005144 Phage capsid family; Region: Phage_capsid; pfam05065 642492005145 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 642492005146 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 642492005147 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 642492005148 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 642492005149 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 642492005150 non-specific DNA binding site [nucleotide binding]; other site 642492005151 salt bridge; other site 642492005152 sequence-specific DNA binding site [nucleotide binding]; other site 642492005153 murein transglycosylase C; Provisional; Region: mltC; PRK11671 642492005154 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 642492005155 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492005156 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 642492005157 active site 642492005158 phosphorylation site [posttranslational modification] 642492005159 intermolecular recognition site; other site 642492005160 dimerization interface [polypeptide binding]; other site 642492005161 LytTr DNA-binding domain; Region: LytTR; pfam04397 642492005162 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492005163 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 642492005164 Accessory gene regulator B; Region: AgrB; pfam04647 642492005165 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 642492005166 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 642492005167 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 642492005168 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 642492005169 putative L-serine binding site [chemical binding]; other site 642492005170 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 642492005171 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 642492005172 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 642492005173 EDD domain protein, DegV family; Region: DegV; TIGR00762 642492005174 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 642492005175 manganese transport transcriptional regulator; Provisional; Region: PRK03902 642492005176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492005177 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492005178 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492005179 putative transposase OrfB; Reviewed; Region: PHA02517 642492005180 HTH-like domain; Region: HTH_21; pfam13276 642492005181 Integrase core domain; Region: rve; pfam00665 642492005182 Integrase core domain; Region: rve_2; pfam13333 642492005183 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492005184 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 642492005185 flavoprotein, HI0933 family; Region: TIGR00275 642492005186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 642492005187 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 642492005188 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 642492005189 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492005190 active site 642492005191 AzlC protein; Region: AzlC; cl00570 642492005192 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 642492005193 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 642492005194 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 642492005195 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 642492005196 motif II; other site 642492005197 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 642492005198 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 642492005199 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 642492005200 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492005201 active site 642492005202 metal binding site [ion binding]; metal-binding site 642492005203 homotetramer interface [polypeptide binding]; other site 642492005204 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492005205 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 642492005206 Walker A/P-loop; other site 642492005207 ATP binding site [chemical binding]; other site 642492005208 Q-loop/lid; other site 642492005209 ABC transporter signature motif; other site 642492005210 Walker B; other site 642492005211 D-loop; other site 642492005212 H-loop/switch region; other site 642492005213 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492005214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492005215 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 642492005216 NMT1-like family; Region: NMT1_2; pfam13379 642492005217 Flagellin N-methylase; Region: FliB; pfam03692 642492005218 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 642492005219 putative deacylase active site [active] 642492005220 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 642492005221 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 642492005222 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 642492005223 active site 642492005224 nucleophile elbow; other site 642492005225 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 642492005226 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 642492005227 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 642492005228 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492005229 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492005230 ABC transporter; Region: ABC_tran_2; pfam12848 642492005231 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492005232 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492005233 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492005234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492005235 Walker A/P-loop; other site 642492005236 ATP binding site [chemical binding]; other site 642492005237 Q-loop/lid; other site 642492005238 ABC transporter signature motif; other site 642492005239 Walker B; other site 642492005240 D-loop; other site 642492005241 H-loop/switch region; other site 642492005242 ABC transporter; Region: ABC_tran_2; pfam12848 642492005243 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492005244 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 642492005245 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 642492005246 RNA binding site [nucleotide binding]; other site 642492005247 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 642492005248 RNA binding site [nucleotide binding]; other site 642492005249 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 642492005250 RNA binding site [nucleotide binding]; other site 642492005251 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 642492005252 RNA binding site [nucleotide binding]; other site 642492005253 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 642492005254 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 642492005255 HIGH motif; other site 642492005256 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 642492005257 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 642492005258 active site 642492005259 KMSKS motif; other site 642492005260 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 642492005261 tRNA binding surface [nucleotide binding]; other site 642492005262 anticodon binding site; other site 642492005263 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 642492005264 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492005265 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492005266 DNA binding site [nucleotide binding] 642492005267 domain linker motif; other site 642492005268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492005269 dimer interface [polypeptide binding]; other site 642492005270 conserved gate region; other site 642492005271 putative PBP binding loops; other site 642492005272 ABC-ATPase subunit interface; other site 642492005273 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492005274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492005275 dimer interface [polypeptide binding]; other site 642492005276 conserved gate region; other site 642492005277 putative PBP binding loops; other site 642492005278 ABC-ATPase subunit interface; other site 642492005279 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 642492005280 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492005281 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 642492005282 homodimer interface [polypeptide binding]; other site 642492005283 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 642492005284 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492005285 active site 642492005286 homodimer interface [polypeptide binding]; other site 642492005287 catalytic site [active] 642492005288 DNA topoisomerase III; Provisional; Region: PRK07726 642492005289 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 642492005290 active site 642492005291 putative interdomain interaction site [polypeptide binding]; other site 642492005292 putative metal-binding site [ion binding]; other site 642492005293 putative nucleotide binding site [chemical binding]; other site 642492005294 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 642492005295 domain I; other site 642492005296 DNA binding groove [nucleotide binding] 642492005297 phosphate binding site [ion binding]; other site 642492005298 domain II; other site 642492005299 domain III; other site 642492005300 nucleotide binding site [chemical binding]; other site 642492005301 catalytic site [active] 642492005302 domain IV; other site 642492005303 RNA polymerase subunit 9; Region: RPOL9; smart00661 642492005304 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 642492005305 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 642492005306 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 642492005307 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 642492005308 Bacterial SH3 domain; Region: SH3_3; pfam08239 642492005309 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 642492005310 NlpC/P60 family; Region: NLPC_P60; pfam00877 642492005311 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 642492005312 MutS domain III; Region: MutS_III; pfam05192 642492005313 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 642492005314 Walker A/P-loop; other site 642492005315 ATP binding site [chemical binding]; other site 642492005316 Q-loop/lid; other site 642492005317 ABC transporter signature motif; other site 642492005318 Walker B; other site 642492005319 D-loop; other site 642492005320 H-loop/switch region; other site 642492005321 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 642492005322 Smr domain; Region: Smr; pfam01713 642492005323 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492005324 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 642492005325 active site 642492005326 phosphorylation site [posttranslational modification] 642492005327 intermolecular recognition site; other site 642492005328 dimerization interface [polypeptide binding]; other site 642492005329 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 642492005330 DNA binding site [nucleotide binding] 642492005331 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492005332 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 642492005333 dimerization interface [polypeptide binding]; other site 642492005334 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 642492005335 dimer interface [polypeptide binding]; other site 642492005336 phosphorylation site [posttranslational modification] 642492005337 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 642492005338 ATP binding site [chemical binding]; other site 642492005339 Mg2+ binding site [ion binding]; other site 642492005340 G-X-G motif; other site 642492005341 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 642492005342 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 642492005343 generic binding surface I; other site 642492005344 generic binding surface II; other site 642492005345 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492005346 Zn2+ binding site [ion binding]; other site 642492005347 Mg2+ binding site [ion binding]; other site 642492005348 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 642492005349 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 642492005350 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 642492005351 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 642492005352 S-adenosylmethionine binding site [chemical binding]; other site 642492005353 Transposase; Region: HTH_Tnp_1; cl17663 642492005354 Homeodomain-like domain; Region: HTH_23; cl17451 642492005355 HTH-like domain; Region: HTH_21; pfam13276 642492005356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492005357 Transposase; Region: HTH_Tnp_1; pfam01527 642492005358 putative transposase OrfB; Reviewed; Region: PHA02517 642492005359 HTH-like domain; Region: HTH_21; pfam13276 642492005360 Integrase core domain; Region: rve; pfam00665 642492005361 Integrase core domain; Region: rve_3; pfam13683 642492005362 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cd00037 642492005363 ligand binding surface [chemical binding]; other site 642492005364 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 642492005365 active site 642492005366 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; pfam10020 642492005367 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 642492005368 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 642492005369 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 642492005370 HD domain; Region: HD_4; pfam13328 642492005371 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 642492005372 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 642492005373 Cytochrome P450; Region: p450; cl12078 642492005374 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 642492005375 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 642492005376 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 642492005377 homotrimer interaction site [polypeptide binding]; other site 642492005378 putative active site [active] 642492005379 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 642492005380 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 642492005381 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 642492005382 putative active site [active] 642492005383 metal binding site [ion binding]; metal-binding site 642492005384 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 642492005385 active site 642492005386 catalytic triad [active] 642492005387 oxyanion hole [active] 642492005388 CBD_II domain; Region: CBD_II; smart00637 642492005389 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492005390 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 642492005391 sugar binding site [chemical binding]; other site 642492005392 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005393 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005394 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005395 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492005396 Cellulose binding domain; Region: CBM_3; pfam00942 642492005397 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 642492005398 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 642492005399 G1 box; other site 642492005400 putative GEF interaction site [polypeptide binding]; other site 642492005401 GTP/Mg2+ binding site [chemical binding]; other site 642492005402 Switch I region; other site 642492005403 G2 box; other site 642492005404 G3 box; other site 642492005405 Switch II region; other site 642492005406 G4 box; other site 642492005407 G5 box; other site 642492005408 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 642492005409 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 642492005410 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 642492005411 YacP-like NYN domain; Region: NYN_YacP; pfam05991 642492005412 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 642492005413 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 642492005414 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492005415 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 642492005416 uracil transporter; Provisional; Region: PRK10720 642492005417 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492005418 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 642492005419 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 642492005420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492005421 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492005422 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 642492005423 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 642492005424 active site 642492005425 FMN binding site [chemical binding]; other site 642492005426 substrate binding site [chemical binding]; other site 642492005427 putative catalytic residue [active] 642492005428 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492005429 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 642492005430 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 642492005431 hypothetical protein; Provisional; Region: PRK13690 642492005432 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 642492005433 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 642492005434 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 642492005435 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 642492005436 FMN binding site [chemical binding]; other site 642492005437 active site 642492005438 catalytic residues [active] 642492005439 substrate binding site [chemical binding]; other site 642492005440 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 642492005441 Chloramphenicol acetyltransferase; Region: CAT; smart01059 642492005442 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492005443 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 642492005444 non-specific DNA binding site [nucleotide binding]; other site 642492005445 salt bridge; other site 642492005446 sequence-specific DNA binding site [nucleotide binding]; other site 642492005447 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 642492005448 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 642492005449 non-heme iron binding site [ion binding]; other site 642492005450 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 642492005451 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 642492005452 salt bridge; other site 642492005453 non-specific DNA binding site [nucleotide binding]; other site 642492005454 sequence-specific DNA binding site [nucleotide binding]; other site 642492005455 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 642492005456 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 642492005457 FeS/SAM binding site; other site 642492005458 zinc transporter ZupT; Provisional; Region: PRK04201 642492005459 ZIP Zinc transporter; Region: Zip; pfam02535 642492005460 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 642492005461 Ferritin-like domain; Region: Ferritin; pfam00210 642492005462 ferroxidase diiron center [ion binding]; other site 642492005463 Phospholipid methyltransferase; Region: PEMT; cl17370 642492005464 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 642492005465 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 642492005466 Predicted transcriptional regulators [Transcription]; Region: COG1733 642492005467 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 642492005468 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 642492005469 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 642492005470 NAD(P) binding site [chemical binding]; other site 642492005471 catalytic residues [active] 642492005472 Uncharacterized conserved protein [Function unknown]; Region: COG3287 642492005473 FIST N domain; Region: FIST; pfam08495 642492005474 FIST C domain; Region: FIST_C; pfam10442 642492005475 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 642492005476 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 642492005477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492005478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492005479 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 642492005480 putative dimerization interface [polypeptide binding]; other site 642492005481 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 642492005482 hypothetical protein; Provisional; Region: PRK09273 642492005483 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 642492005484 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 642492005485 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 642492005486 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 642492005487 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 642492005488 G1 box; other site 642492005489 putative GEF interaction site [polypeptide binding]; other site 642492005490 GTP/Mg2+ binding site [chemical binding]; other site 642492005491 Switch I region; other site 642492005492 G2 box; other site 642492005493 G3 box; other site 642492005494 Switch II region; other site 642492005495 G4 box; other site 642492005496 G5 box; other site 642492005497 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 642492005498 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 642492005499 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 642492005500 active site 642492005501 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 642492005502 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 642492005503 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 642492005504 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 642492005505 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 642492005506 ATP cone domain; Region: ATP-cone; pfam03477 642492005507 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 642492005508 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 642492005509 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 642492005510 FeS/SAM binding site; other site 642492005511 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 642492005512 trimer interface [polypeptide binding]; other site 642492005513 active site 642492005514 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 642492005515 ATP cone domain; Region: ATP-cone; pfam03477 642492005516 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 642492005517 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 642492005518 metal ion-dependent adhesion site (MIDAS); other site 642492005519 Protein of unknown function, DUF488; Region: DUF488; pfam04343 642492005520 Hemerythrin; Region: Hemerythrin; cd12107 642492005521 Fe binding site [ion binding]; other site 642492005522 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 642492005523 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 642492005524 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 642492005525 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 642492005526 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 642492005527 dimer interface [polypeptide binding]; other site 642492005528 PYR/PP interface [polypeptide binding]; other site 642492005529 TPP binding site [chemical binding]; other site 642492005530 substrate binding site [chemical binding]; other site 642492005531 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 642492005532 Domain of unknown function; Region: EKR; smart00890 642492005533 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 642492005534 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 642492005535 TPP-binding site [chemical binding]; other site 642492005536 dimer interface [polypeptide binding]; other site 642492005537 HNH endonuclease; Region: HNH; pfam01844 642492005538 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492005539 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 642492005540 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492005541 Peptidase M16C associated; Region: M16C_assoc; pfam08367 642492005542 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 642492005543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 642492005544 aspartate aminotransferase; Provisional; Region: PRK07681 642492005545 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 642492005546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492005547 homodimer interface [polypeptide binding]; other site 642492005548 catalytic residue [active] 642492005549 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 642492005550 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 642492005551 Walker A motif; other site 642492005552 ATP binding site [chemical binding]; other site 642492005553 Walker B motif; other site 642492005554 arginine finger; other site 642492005555 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 642492005556 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 642492005557 Sulfate transporter family; Region: Sulfate_transp; pfam00916 642492005558 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 642492005559 Transglutaminase/protease-like homologues; Region: TGc; smart00460 642492005560 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 642492005561 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 642492005562 glutaminase active site [active] 642492005563 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 642492005564 dimer interface [polypeptide binding]; other site 642492005565 active site 642492005566 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 642492005567 dimer interface [polypeptide binding]; other site 642492005568 active site 642492005569 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 642492005570 putative metal binding site [ion binding]; other site 642492005571 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 642492005572 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 642492005573 CoenzymeA binding site [chemical binding]; other site 642492005574 subunit interaction site [polypeptide binding]; other site 642492005575 PHB binding site; other site 642492005576 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492005577 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 642492005578 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 642492005579 Ligand binding site; other site 642492005580 Putative Catalytic site; other site 642492005581 DXD motif; other site 642492005582 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 642492005583 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 642492005584 NodB motif; other site 642492005585 active site 642492005586 catalytic site [active] 642492005587 Cd binding site [ion binding]; other site 642492005588 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 642492005589 Clp amino terminal domain; Region: Clp_N; pfam02861 642492005590 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 642492005591 Walker A motif; other site 642492005592 ATP binding site [chemical binding]; other site 642492005593 Walker B motif; other site 642492005594 arginine finger; other site 642492005595 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 642492005596 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 642492005597 Walker A motif; other site 642492005598 ATP binding site [chemical binding]; other site 642492005599 Walker B motif; other site 642492005600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 642492005601 Uncharacterized conserved protein [Function unknown]; Region: COG1683 642492005602 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492005603 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 642492005604 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 642492005605 dimerization interface [polypeptide binding]; other site 642492005606 Histidine kinase; Region: His_kinase; pfam06580 642492005607 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 642492005608 ATP binding site [chemical binding]; other site 642492005609 Mg2+ binding site [ion binding]; other site 642492005610 G-X-G motif; other site 642492005611 Response regulator receiver domain; Region: Response_reg; pfam00072 642492005612 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 642492005613 active site 642492005614 phosphorylation site [posttranslational modification] 642492005615 intermolecular recognition site; other site 642492005616 dimerization interface [polypeptide binding]; other site 642492005617 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492005618 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492005619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492005620 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492005621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492005622 dimer interface [polypeptide binding]; other site 642492005623 conserved gate region; other site 642492005624 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492005625 ABC-ATPase subunit interface; other site 642492005626 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492005627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492005628 dimer interface [polypeptide binding]; other site 642492005629 conserved gate region; other site 642492005630 putative PBP binding loops; other site 642492005631 ABC-ATPase subunit interface; other site 642492005632 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492005633 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 642492005634 YabP family; Region: YabP; cl06766 642492005635 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 642492005636 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 642492005637 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 642492005638 PhoH-like protein; Region: PhoH; pfam02562 642492005639 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 642492005640 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 642492005641 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492005642 Zn2+ binding site [ion binding]; other site 642492005643 Mg2+ binding site [ion binding]; other site 642492005644 metal-binding heat shock protein; Provisional; Region: PRK00016 642492005645 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 642492005646 active site 642492005647 catalytic motif [active] 642492005648 Zn binding site [ion binding]; other site 642492005649 GTPase Era; Reviewed; Region: era; PRK00089 642492005650 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 642492005651 G1 box; other site 642492005652 GTP/Mg2+ binding site [chemical binding]; other site 642492005653 Switch I region; other site 642492005654 G2 box; other site 642492005655 Switch II region; other site 642492005656 G3 box; other site 642492005657 G4 box; other site 642492005658 G5 box; other site 642492005659 KH domain; Region: KH_2; pfam07650 642492005660 YqzL-like protein; Region: YqzL; pfam14006 642492005661 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 642492005662 Recombination protein O N terminal; Region: RecO_N; pfam11967 642492005663 Recombination protein O C terminal; Region: RecO_C; pfam02565 642492005664 DNA polymerase I; Provisional; Region: PRK05755 642492005665 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 642492005666 active site 642492005667 metal binding site 1 [ion binding]; metal-binding site 642492005668 putative 5' ssDNA interaction site; other site 642492005669 metal binding site 3; metal-binding site 642492005670 metal binding site 2 [ion binding]; metal-binding site 642492005671 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 642492005672 putative DNA binding site [nucleotide binding]; other site 642492005673 putative metal binding site [ion binding]; other site 642492005674 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 642492005675 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 642492005676 active site 642492005677 DNA binding site [nucleotide binding] 642492005678 catalytic site [active] 642492005679 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 642492005680 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 642492005681 CoA-binding site [chemical binding]; other site 642492005682 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 642492005683 peptide binding site [polypeptide binding]; other site 642492005684 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 642492005685 dimer interface [polypeptide binding]; other site 642492005686 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 642492005687 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 642492005688 nucleotide binding site/active site [active] 642492005689 HIT family signature motif; other site 642492005690 catalytic residue [active] 642492005691 Cell division protein FtsA; Region: FtsA; smart00842 642492005692 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 642492005693 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 642492005694 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 642492005695 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 642492005696 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 642492005697 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 642492005698 metal binding site [ion binding]; metal-binding site 642492005699 dimer interface [polypeptide binding]; other site 642492005700 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 642492005701 Domain of unknown function DUF20; Region: UPF0118; pfam01594 642492005702 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 642492005703 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 642492005704 active site 642492005705 HIGH motif; other site 642492005706 dimer interface [polypeptide binding]; other site 642492005707 KMSKS motif; other site 642492005708 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 642492005709 RNA binding surface [nucleotide binding]; other site 642492005710 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492005711 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 642492005712 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 642492005713 active site 642492005714 catalytic site [active] 642492005715 Uncharacterized conserved protein [Function unknown]; Region: COG2155 642492005716 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 642492005717 active site 642492005718 Zn binding site [ion binding]; other site 642492005719 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 642492005720 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492005721 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492005722 active site 642492005723 metal binding site [ion binding]; metal-binding site 642492005724 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 642492005725 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 642492005726 S-adenosylmethionine binding site [chemical binding]; other site 642492005727 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 642492005728 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 642492005729 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 642492005730 RNA binding surface [nucleotide binding]; other site 642492005731 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 642492005732 active site 642492005733 uracil binding [chemical binding]; other site 642492005734 ornithine carbamoyltransferase; Validated; Region: PRK02102 642492005735 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 642492005736 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 642492005737 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 642492005738 homodimer interface [polypeptide binding]; other site 642492005739 substrate-cofactor binding pocket; other site 642492005740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492005741 catalytic residue [active] 642492005742 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 642492005743 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 642492005744 putative ligand binding site [chemical binding]; other site 642492005745 putative NAD binding site [chemical binding]; other site 642492005746 putative catalytic site [active] 642492005747 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 642492005748 L-serine binding site [chemical binding]; other site 642492005749 ACT domain interface; other site 642492005750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492005751 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 642492005752 ATP binding site [chemical binding]; other site 642492005753 Mg2+ binding site [ion binding]; other site 642492005754 G-X-G motif; other site 642492005755 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 642492005756 SLBB domain; Region: SLBB; pfam10531 642492005757 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 642492005758 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 642492005759 FMN-binding domain; Region: FMN_bind; cl01081 642492005760 electron transport complex RsxE subunit; Provisional; Region: PRK12405 642492005761 electron transport complex protein RsxA; Provisional; Region: PRK05151 642492005762 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492005763 4Fe-4S binding domain; Region: Fer4; pfam00037 642492005764 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 642492005765 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 642492005766 Maf-like protein; Region: Maf; pfam02545 642492005767 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 642492005768 active site 642492005769 dimer interface [polypeptide binding]; other site 642492005770 hypothetical protein; Reviewed; Region: PRK00024 642492005771 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 642492005772 MPN+ (JAMM) motif; other site 642492005773 Zinc-binding site [ion binding]; other site 642492005774 rod shape-determining protein MreB; Provisional; Region: PRK13927 642492005775 MreB and similar proteins; Region: MreB_like; cd10225 642492005776 nucleotide binding site [chemical binding]; other site 642492005777 Mg binding site [ion binding]; other site 642492005778 putative protofilament interaction site [polypeptide binding]; other site 642492005779 RodZ interaction site [polypeptide binding]; other site 642492005780 rod shape-determining protein MreC; Provisional; Region: PRK13922 642492005781 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 642492005782 rod shape-determining protein MreC; Region: MreC; pfam04085 642492005783 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 642492005784 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492005785 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492005786 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 642492005787 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 642492005788 septum formation inhibitor; Reviewed; Region: minC; PRK00513 642492005789 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 642492005790 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 642492005791 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 642492005792 Switch I; other site 642492005793 Switch II; other site 642492005794 Septum formation topological specificity factor MinE; Region: MinE; cl00538 642492005795 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 642492005796 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 642492005797 substrate binding site [chemical binding]; other site 642492005798 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 642492005799 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 642492005800 FeS/SAM binding site; other site 642492005801 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 642492005802 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 642492005803 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 642492005804 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 642492005805 homodimer interface [polypeptide binding]; other site 642492005806 oligonucleotide binding site [chemical binding]; other site 642492005807 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 642492005808 Protein of unknown function (DUF464); Region: DUF464; pfam04327 642492005809 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 642492005810 GTPase CgtA; Reviewed; Region: obgE; PRK12297 642492005811 GTP1/OBG; Region: GTP1_OBG; pfam01018 642492005812 Obg GTPase; Region: Obg; cd01898 642492005813 G1 box; other site 642492005814 GTP/Mg2+ binding site [chemical binding]; other site 642492005815 Switch I region; other site 642492005816 G2 box; other site 642492005817 G3 box; other site 642492005818 Switch II region; other site 642492005819 G4 box; other site 642492005820 G5 box; other site 642492005821 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 642492005822 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 642492005823 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 642492005824 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 642492005825 active site 642492005826 (T/H)XGH motif; other site 642492005827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492005828 Zn2+ binding site [ion binding]; other site 642492005829 Mg2+ binding site [ion binding]; other site 642492005830 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 642492005831 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492005832 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492005833 Oligomerisation domain; Region: Oligomerisation; cl00519 642492005834 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492005835 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 642492005836 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 642492005837 SLBB domain; Region: SLBB; pfam10531 642492005838 comEA protein; Region: comE; TIGR01259 642492005839 Helix-hairpin-helix motif; Region: HHH; pfam00633 642492005840 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492005841 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 642492005842 active site 642492005843 phosphorylation site [posttranslational modification] 642492005844 intermolecular recognition site; other site 642492005845 dimerization interface [polypeptide binding]; other site 642492005846 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 642492005847 DNA binding site [nucleotide binding] 642492005848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492005849 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 642492005850 dimerization interface [polypeptide binding]; other site 642492005851 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 642492005852 dimer interface [polypeptide binding]; other site 642492005853 phosphorylation site [posttranslational modification] 642492005854 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 642492005855 ATP binding site [chemical binding]; other site 642492005856 Mg2+ binding site [ion binding]; other site 642492005857 G-X-G motif; other site 642492005858 Sporulation and spore germination; Region: Germane; pfam10646 642492005859 Sporulation and spore germination; Region: Germane; pfam10646 642492005860 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 642492005861 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 642492005862 Competence protein; Region: Competence; pfam03772 642492005863 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 642492005864 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 642492005865 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 642492005866 DNA polymerase III, delta subunit; Region: holA; TIGR01128 642492005867 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 642492005868 germination protease; Provisional; Region: PRK12362 642492005869 stage II sporulation protein P; Region: spore_II_P; TIGR02867 642492005870 GTP-binding protein LepA; Provisional; Region: PRK05433 642492005871 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 642492005872 G1 box; other site 642492005873 putative GEF interaction site [polypeptide binding]; other site 642492005874 GTP/Mg2+ binding site [chemical binding]; other site 642492005875 Switch I region; other site 642492005876 G2 box; other site 642492005877 G3 box; other site 642492005878 Switch II region; other site 642492005879 G4 box; other site 642492005880 G5 box; other site 642492005881 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 642492005882 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 642492005883 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 642492005884 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 642492005885 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 642492005886 FeS/SAM binding site; other site 642492005887 HemN C-terminal domain; Region: HemN_C; pfam06969 642492005888 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 642492005889 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 642492005890 GrpE; Region: GrpE; pfam01025 642492005891 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 642492005892 dimer interface [polypeptide binding]; other site 642492005893 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 642492005894 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 642492005895 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 642492005896 nucleotide binding site [chemical binding]; other site 642492005897 NEF interaction site [polypeptide binding]; other site 642492005898 SBD interface [polypeptide binding]; other site 642492005899 Fungal protein of unknown function (DUF1742); Region: DUF1742; pfam08432 642492005900 chaperone protein DnaJ; Provisional; Region: PRK10767 642492005901 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 642492005902 HSP70 interaction site [polypeptide binding]; other site 642492005903 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 642492005904 substrate binding site [polypeptide binding]; other site 642492005905 dimer interface [polypeptide binding]; other site 642492005906 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 642492005907 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 642492005908 S-adenosylmethionine binding site [chemical binding]; other site 642492005909 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 642492005910 RNA methyltransferase, RsmE family; Region: TIGR00046 642492005911 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 642492005912 Response regulator receiver domain; Region: Response_reg; pfam00072 642492005913 active site 642492005914 phosphorylation site [posttranslational modification] 642492005915 intermolecular recognition site; other site 642492005916 dimerization interface [polypeptide binding]; other site 642492005917 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 642492005918 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 642492005919 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492005920 catalytic residue [active] 642492005921 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 642492005922 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 642492005923 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 642492005924 Ligand Binding Site [chemical binding]; other site 642492005925 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 642492005926 regulatory protein interface [polypeptide binding]; other site 642492005927 regulatory phosphorylation site [posttranslational modification]; other site 642492005928 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 642492005929 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 642492005930 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 642492005931 FeS/SAM binding site; other site 642492005932 hypothetical protein; Provisional; Region: PRK05473 642492005933 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 642492005934 ferric uptake regulator; Provisional; Region: fur; PRK09462 642492005935 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492005936 metal binding site 2 [ion binding]; metal-binding site 642492005937 putative DNA binding helix; other site 642492005938 metal binding site 1 [ion binding]; metal-binding site 642492005939 dimer interface [polypeptide binding]; other site 642492005940 structural Zn2+ binding site [ion binding]; other site 642492005941 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 642492005942 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 642492005943 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 642492005944 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 642492005945 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492005946 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 642492005947 DNA binding residues [nucleotide binding] 642492005948 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 642492005949 Peptidase family U32; Region: Peptidase_U32; pfam01136 642492005950 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 642492005951 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 642492005952 S-adenosylmethionine binding site [chemical binding]; other site 642492005953 YceG-like family; Region: YceG; pfam02618 642492005954 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 642492005955 dimerization interface [polypeptide binding]; other site 642492005956 Flavoprotein; Region: Flavoprotein; cl08021 642492005957 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 642492005958 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 642492005959 NAD binding site [chemical binding]; other site 642492005960 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 642492005961 TSCPD domain; Region: TSCPD; cl14834 642492005962 aspartate kinase I; Reviewed; Region: PRK08210 642492005963 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 642492005964 nucleotide binding site [chemical binding]; other site 642492005965 substrate binding site [chemical binding]; other site 642492005966 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 642492005967 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492005968 Clp protease; Region: CLP_protease; pfam00574 642492005969 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 642492005970 active site 642492005971 YlzJ-like protein; Region: YlzJ; pfam14035 642492005972 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 642492005973 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 642492005974 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 642492005975 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 642492005976 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 642492005977 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 642492005978 Potassium binding sites [ion binding]; other site 642492005979 Cesium cation binding sites [ion binding]; other site 642492005980 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 642492005981 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 642492005982 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 642492005983 homodimer interface [polypeptide binding]; other site 642492005984 NADP binding site [chemical binding]; other site 642492005985 substrate binding site [chemical binding]; other site 642492005986 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 642492005987 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 642492005988 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 642492005989 FeS/SAM binding site; other site 642492005990 TRAM domain; Region: TRAM; cl01282 642492005991 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 642492005992 flavoprotein, HI0933 family; Region: TIGR00275 642492005993 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 642492005994 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 642492005995 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 642492005996 putative acyl-acceptor binding pocket; other site 642492005997 Uncharacterized conserved protein [Function unknown]; Region: COG4198 642492005998 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 642492005999 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 642492006000 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 642492006001 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 642492006002 motif 1; other site 642492006003 active site 642492006004 motif 2; other site 642492006005 motif 3; other site 642492006006 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 642492006007 DHHA1 domain; Region: DHHA1; pfam02272 642492006008 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 642492006009 Yqey-like protein; Region: YqeY; pfam09424 642492006010 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 642492006011 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 642492006012 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492006013 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 642492006014 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492006015 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 642492006016 active site 642492006017 DNA binding site [nucleotide binding] 642492006018 Int/Topo IB signature motif; other site 642492006019 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 642492006020 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 642492006021 NAD(P) binding site [chemical binding]; other site 642492006022 catalytic residues [active] 642492006023 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 642492006024 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 642492006025 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492006026 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 642492006027 putative ligand binding site [chemical binding]; other site 642492006028 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492006029 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492006030 active site 642492006031 metal binding site [ion binding]; metal-binding site 642492006032 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492006033 Bacterial Ig-like domain; Region: Big_5; pfam13205 642492006034 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 642492006035 glutamate dehydrogenase; Provisional; Region: PRK09414 642492006036 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 642492006037 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 642492006038 NAD(P) binding site [chemical binding]; other site 642492006039 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492006040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492006041 Zn2+ binding site [ion binding]; other site 642492006042 Mg2+ binding site [ion binding]; other site 642492006043 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 642492006044 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 642492006045 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 642492006046 FeS/SAM binding site; other site 642492006047 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 642492006048 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 642492006049 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 642492006050 minor groove reading motif; other site 642492006051 helix-hairpin-helix signature motif; other site 642492006052 substrate binding pocket [chemical binding]; other site 642492006053 active site 642492006054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492006055 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 642492006056 putative ADP-binding pocket [chemical binding]; other site 642492006057 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 642492006058 Part of AAA domain; Region: AAA_19; pfam13245 642492006059 AAA domain; Region: AAA_14; pfam13173 642492006060 Family description; Region: UvrD_C_2; pfam13538 642492006061 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 642492006062 VanW like protein; Region: VanW; pfam04294 642492006063 G5 domain; Region: G5; pfam07501 642492006064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492006065 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492006066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492006067 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492006068 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 642492006069 Transglycosylase; Region: Transgly; pfam00912 642492006070 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 642492006071 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 642492006072 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 642492006073 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 642492006074 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 642492006075 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 642492006076 substrate binding site [chemical binding]; other site 642492006077 ATP binding site [chemical binding]; other site 642492006078 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 642492006079 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 642492006080 HflX GTPase family; Region: HflX; cd01878 642492006081 G1 box; other site 642492006082 GTP/Mg2+ binding site [chemical binding]; other site 642492006083 Switch I region; other site 642492006084 G2 box; other site 642492006085 G3 box; other site 642492006086 Switch II region; other site 642492006087 G4 box; other site 642492006088 G5 box; other site 642492006089 Uncharacterized conserved protein [Function unknown]; Region: COG1739 642492006090 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 642492006091 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 642492006092 hypothetical protein; Validated; Region: PRK00110 642492006093 PilZ domain; Region: PilZ; pfam07238 642492006094 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 642492006095 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 642492006096 S-adenosylmethionine binding site [chemical binding]; other site 642492006097 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 642492006098 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 642492006099 ATP binding site [chemical binding]; other site 642492006100 putative Mg++ binding site [ion binding]; other site 642492006101 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 642492006102 nucleotide binding region [chemical binding]; other site 642492006103 ATP-binding site [chemical binding]; other site 642492006104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492006105 Transposase; Region: HTH_Tnp_1; pfam01527 642492006106 putative transposase OrfB; Reviewed; Region: PHA02517 642492006107 HTH-like domain; Region: HTH_21; pfam13276 642492006108 Integrase core domain; Region: rve; pfam00665 642492006109 Integrase core domain; Region: rve_3; pfam13683 642492006110 Cellulose binding domain; Region: CBM_2; pfam00553 642492006111 CBD_II domain; Region: CBD_II; smart00637 642492006112 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 642492006113 metal ion-dependent adhesion site (MIDAS); other site 642492006114 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 642492006115 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 642492006116 active site 642492006117 NTP binding site [chemical binding]; other site 642492006118 metal binding triad [ion binding]; metal-binding site 642492006119 Mago nashi proteins, integral members of the exon junction complex; Region: Mago_nashi; cl03715 642492006120 Y14 interface [polypeptide binding]; other site 642492006121 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 642492006122 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 642492006123 classical (c) SDRs; Region: SDR_c; cd05233 642492006124 NAD(P) binding site [chemical binding]; other site 642492006125 active site 642492006126 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 642492006127 Flagellin N-methylase; Region: FliB; pfam03692 642492006128 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 642492006129 active site 642492006130 catalytic site [active] 642492006131 substrate binding site [chemical binding]; other site 642492006132 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 642492006133 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 642492006134 active site 642492006135 metal binding site [ion binding]; metal-binding site 642492006136 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 642492006137 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 642492006138 putative ligand binding site [chemical binding]; other site 642492006139 putative NAD binding site [chemical binding]; other site 642492006140 catalytic site [active] 642492006141 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 642492006142 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 642492006143 non-heme iron binding site [ion binding]; other site 642492006144 Heme NO binding; Region: HNOB; pfam07700 642492006145 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492006146 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492006147 dimer interface [polypeptide binding]; other site 642492006148 putative CheW interface [polypeptide binding]; other site 642492006149 Predicted membrane protein [Function unknown]; Region: COG2860 642492006150 UPF0126 domain; Region: UPF0126; pfam03458 642492006151 UPF0126 domain; Region: UPF0126; pfam03458 642492006152 aspartate aminotransferase; Provisional; Region: PRK09275 642492006153 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 642492006154 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 642492006155 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 642492006156 GIY-YIG motif/motif A; other site 642492006157 active site 642492006158 catalytic site [active] 642492006159 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 642492006160 GIY-YIG motif/motif A; other site 642492006161 active site 642492006162 catalytic site [active] 642492006163 putative DNA binding site [nucleotide binding]; other site 642492006164 metal binding site [ion binding]; metal-binding site 642492006165 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 642492006166 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 642492006167 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 642492006168 Ligand Binding Site [chemical binding]; other site 642492006169 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 642492006170 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 642492006171 LexA repressor; Validated; Region: PRK00215 642492006172 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 642492006173 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 642492006174 Catalytic site [active] 642492006175 NAD synthetase; Reviewed; Region: nadE; PRK02628 642492006176 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 642492006177 multimer interface [polypeptide binding]; other site 642492006178 active site 642492006179 catalytic triad [active] 642492006180 protein interface 1 [polypeptide binding]; other site 642492006181 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 642492006182 homodimer interface [polypeptide binding]; other site 642492006183 NAD binding pocket [chemical binding]; other site 642492006184 ATP binding pocket [chemical binding]; other site 642492006185 Mg binding site [ion binding]; other site 642492006186 active-site loop [active] 642492006187 Aluminium resistance protein; Region: Alum_res; pfam06838 642492006188 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 642492006189 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 642492006190 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 642492006191 Coenzyme A binding pocket [chemical binding]; other site 642492006192 bacterial Hfq-like; Region: Hfq; cd01716 642492006193 hexamer interface [polypeptide binding]; other site 642492006194 Sm1 motif; other site 642492006195 RNA binding site [nucleotide binding]; other site 642492006196 Sm2 motif; other site 642492006197 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 642492006198 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 642492006199 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 642492006200 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 642492006201 ATP binding site [chemical binding]; other site 642492006202 Mg2+ binding site [ion binding]; other site 642492006203 G-X-G motif; other site 642492006204 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 642492006205 ATP binding site [chemical binding]; other site 642492006206 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 642492006207 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 642492006208 MutS domain I; Region: MutS_I; pfam01624 642492006209 MutS domain II; Region: MutS_II; pfam05188 642492006210 MutS domain III; Region: MutS_III; pfam05192 642492006211 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 642492006212 Walker A/P-loop; other site 642492006213 ATP binding site [chemical binding]; other site 642492006214 Q-loop/lid; other site 642492006215 ABC transporter signature motif; other site 642492006216 Walker B; other site 642492006217 D-loop; other site 642492006218 H-loop/switch region; other site 642492006219 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 642492006220 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 642492006221 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 642492006222 FeS/SAM binding site; other site 642492006223 TRAM domain; Region: TRAM; pfam01938 642492006224 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 642492006225 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492006226 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 642492006227 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 642492006228 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 642492006229 dimer interface [polypeptide binding]; other site 642492006230 phosphorylation site [posttranslational modification] 642492006231 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 642492006232 ATP binding site [chemical binding]; other site 642492006233 Mg2+ binding site [ion binding]; other site 642492006234 G-X-G motif; other site 642492006235 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492006236 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 642492006237 active site 642492006238 phosphorylation site [posttranslational modification] 642492006239 intermolecular recognition site; other site 642492006240 dimerization interface [polypeptide binding]; other site 642492006241 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 642492006242 DNA binding site [nucleotide binding] 642492006243 pyruvate kinase; Provisional; Region: PRK06354 642492006244 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 642492006245 domain interfaces; other site 642492006246 active site 642492006247 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 642492006248 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492006249 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492006250 Zn2+ binding site [ion binding]; other site 642492006251 Mg2+ binding site [ion binding]; other site 642492006252 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 642492006253 Ligand Binding Site [chemical binding]; other site 642492006254 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 642492006255 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 642492006256 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492006257 catalytic residue [active] 642492006258 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 642492006259 Pyruvate formate lyase 1; Region: PFL1; cd01678 642492006260 coenzyme A binding site [chemical binding]; other site 642492006261 active site 642492006262 catalytic residues [active] 642492006263 glycine loop; other site 642492006264 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 642492006265 active site 642492006266 dimer interfaces [polypeptide binding]; other site 642492006267 catalytic residues [active] 642492006268 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 642492006269 Part of AAA domain; Region: AAA_19; pfam13245 642492006270 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 642492006271 active site 642492006272 catalytic site [active] 642492006273 substrate binding site [chemical binding]; other site 642492006274 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 642492006275 Family description; Region: UvrD_C_2; pfam13538 642492006276 Methyltransferase domain; Region: Methyltransf_31; pfam13847 642492006277 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 642492006278 S-adenosylmethionine binding site [chemical binding]; other site 642492006279 RNase_H superfamily; Region: RNase_H_2; pfam13482 642492006280 active site 642492006281 substrate binding site [chemical binding]; other site 642492006282 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 642492006283 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 642492006284 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 642492006285 LytB protein; Region: LYTB; cl00507 642492006286 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 642492006287 cytidylate kinase; Provisional; Region: cmk; PRK00023 642492006288 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 642492006289 CMP-binding site; other site 642492006290 The sites determining sugar specificity; other site 642492006291 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 642492006292 homotrimer interaction site [polypeptide binding]; other site 642492006293 active site 642492006294 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 642492006295 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 642492006296 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 642492006297 putative active site [active] 642492006298 oxaloacetate decarboxylase; Provisional; Region: PRK12331 642492006299 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 642492006300 active site 642492006301 catalytic residues [active] 642492006302 metal binding site [ion binding]; metal-binding site 642492006303 homodimer binding site [polypeptide binding]; other site 642492006304 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 642492006305 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 642492006306 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 642492006307 carboxyltransferase (CT) interaction site; other site 642492006308 biotinylation site [posttranslational modification]; other site 642492006309 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 642492006310 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 642492006311 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 642492006312 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 642492006313 RNA binding surface [nucleotide binding]; other site 642492006314 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 642492006315 active site 642492006316 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492006317 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 642492006318 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 642492006319 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 642492006320 ScpA/B protein; Region: ScpA_ScpB; cl00598 642492006321 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492006322 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 642492006323 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 642492006324 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 642492006325 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 642492006326 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 642492006327 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 642492006328 phosphopentomutase; Provisional; Region: PRK05362 642492006329 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 642492006330 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 642492006331 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 642492006332 active site 642492006333 DNA binding site [nucleotide binding] 642492006334 Int/Topo IB signature motif; other site 642492006335 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 642492006336 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492006337 active site 642492006338 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 642492006339 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 642492006340 RNA binding surface [nucleotide binding]; other site 642492006341 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 642492006342 active site 642492006343 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 642492006344 DivIVA protein; Region: DivIVA; pfam05103 642492006345 DivIVA domain; Region: DivI1A_domain; TIGR03544 642492006346 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 642492006347 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 642492006348 RNA binding surface [nucleotide binding]; other site 642492006349 Protein of unknown function (DUF552); Region: DUF552; pfam04472 642492006350 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 642492006351 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492006352 catalytic residue [active] 642492006353 HlyD family secretion protein; Region: HlyD_2; pfam12700 642492006354 putative membrane fusion protein; Region: TIGR02828 642492006355 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 642492006356 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 642492006357 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 642492006358 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 642492006359 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 642492006360 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 642492006361 GTP-binding protein Der; Reviewed; Region: PRK00093 642492006362 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 642492006363 G1 box; other site 642492006364 GTP/Mg2+ binding site [chemical binding]; other site 642492006365 Switch I region; other site 642492006366 G2 box; other site 642492006367 Switch II region; other site 642492006368 G3 box; other site 642492006369 G4 box; other site 642492006370 G5 box; other site 642492006371 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 642492006372 G1 box; other site 642492006373 GTP/Mg2+ binding site [chemical binding]; other site 642492006374 Switch I region; other site 642492006375 G2 box; other site 642492006376 G3 box; other site 642492006377 Switch II region; other site 642492006378 G4 box; other site 642492006379 G5 box; other site 642492006380 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 642492006381 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 642492006382 hypothetical protein; Reviewed; Region: PRK12497 642492006383 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 642492006384 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 642492006385 RNA/DNA hybrid binding site [nucleotide binding]; other site 642492006386 active site 642492006387 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 642492006388 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 642492006389 Catalytic site [active] 642492006390 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 642492006391 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 642492006392 Catalytic site [active] 642492006393 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 642492006394 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 642492006395 Catalytic site [active] 642492006396 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 642492006397 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 642492006398 GTP/Mg2+ binding site [chemical binding]; other site 642492006399 G4 box; other site 642492006400 G5 box; other site 642492006401 G1 box; other site 642492006402 Switch I region; other site 642492006403 G2 box; other site 642492006404 G3 box; other site 642492006405 Switch II region; other site 642492006406 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 642492006407 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 642492006408 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 642492006409 RimM N-terminal domain; Region: RimM; pfam01782 642492006410 PRC-barrel domain; Region: PRC; pfam05239 642492006411 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 642492006412 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 642492006413 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 642492006414 signal recognition particle protein; Provisional; Region: PRK10867 642492006415 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 642492006416 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 642492006417 P loop; other site 642492006418 GTP binding site [chemical binding]; other site 642492006419 Signal peptide binding domain; Region: SRP_SPB; pfam02978 642492006420 putative DNA-binding protein; Validated; Region: PRK00118 642492006421 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 642492006422 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 642492006423 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 642492006424 P loop; other site 642492006425 GTP binding site [chemical binding]; other site 642492006426 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 642492006427 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 642492006428 Walker A/P-loop; other site 642492006429 ATP binding site [chemical binding]; other site 642492006430 Q-loop/lid; other site 642492006431 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 642492006432 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 642492006433 Q-loop/lid; other site 642492006434 ABC transporter signature motif; other site 642492006435 Walker B; other site 642492006436 D-loop; other site 642492006437 H-loop/switch region; other site 642492006438 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 642492006439 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 642492006440 dimerization interface [polypeptide binding]; other site 642492006441 active site 642492006442 metal binding site [ion binding]; metal-binding site 642492006443 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 642492006444 acyl carrier protein; Provisional; Region: acpP; PRK00982 642492006445 putative phosphate acyltransferase; Provisional; Region: PRK05331 642492006446 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 642492006447 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 642492006448 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 642492006449 propionate/acetate kinase; Provisional; Region: PRK12379 642492006450 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 642492006451 hypothetical protein; Provisional; Region: PRK13670 642492006452 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 642492006453 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 642492006454 transcriptional repressor CodY; Validated; Region: PRK04158 642492006455 CodY GAF-like domain; Region: CodY; pfam06018 642492006456 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 642492006457 DNA topoisomerase I; Validated; Region: PRK05582 642492006458 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 642492006459 active site 642492006460 interdomain interaction site; other site 642492006461 putative metal-binding site [ion binding]; other site 642492006462 nucleotide binding site [chemical binding]; other site 642492006463 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 642492006464 domain I; other site 642492006465 DNA binding groove [nucleotide binding] 642492006466 phosphate binding site [ion binding]; other site 642492006467 domain II; other site 642492006468 domain III; other site 642492006469 nucleotide binding site [chemical binding]; other site 642492006470 catalytic site [active] 642492006471 domain IV; other site 642492006472 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 642492006473 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 642492006474 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 642492006475 DNA protecting protein DprA; Region: dprA; TIGR00732 642492006476 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 642492006477 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 642492006478 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 642492006479 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 642492006480 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 642492006481 ATP cone domain; Region: ATP-cone; pfam03477 642492006482 sporulation sigma factor SigG; Reviewed; Region: PRK08215 642492006483 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006484 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492006485 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 642492006486 DNA binding residues [nucleotide binding] 642492006487 sporulation sigma factor SigE; Reviewed; Region: PRK08301 642492006488 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006489 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 642492006490 DNA binding residues [nucleotide binding] 642492006491 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 642492006492 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 642492006493 cell division protein FtsZ; Validated; Region: PRK09330 642492006494 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 642492006495 nucleotide binding site [chemical binding]; other site 642492006496 SulA interaction site; other site 642492006497 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 642492006498 Cell division protein FtsQ; Region: FtsQ; pfam03799 642492006499 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 642492006500 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 642492006501 hinge; other site 642492006502 active site 642492006503 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 642492006504 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 642492006505 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492006506 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492006507 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 642492006508 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 642492006509 Mg++ binding site [ion binding]; other site 642492006510 putative catalytic motif [active] 642492006511 putative substrate binding site [chemical binding]; other site 642492006512 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 642492006513 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492006514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492006515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492006516 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 642492006517 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 642492006518 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492006519 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492006520 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 642492006521 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492006522 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 642492006523 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 642492006524 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 642492006525 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492006526 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 642492006527 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 642492006528 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 642492006529 Septum formation initiator; Region: DivIC; cl17659 642492006530 MraW methylase family; Region: Methyltransf_5; pfam01795 642492006531 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 642492006532 cell division protein MraZ; Reviewed; Region: PRK00326 642492006533 MraZ protein; Region: MraZ; pfam02381 642492006534 MraZ protein; Region: MraZ; pfam02381 642492006535 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 642492006536 GTP-binding protein YchF; Reviewed; Region: PRK09601 642492006537 YchF GTPase; Region: YchF; cd01900 642492006538 G1 box; other site 642492006539 GTP/Mg2+ binding site [chemical binding]; other site 642492006540 Switch I region; other site 642492006541 G2 box; other site 642492006542 Switch II region; other site 642492006543 G3 box; other site 642492006544 G4 box; other site 642492006545 G5 box; other site 642492006546 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 642492006547 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 642492006548 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 642492006549 Mechanosensitive ion channel; Region: MS_channel; pfam00924 642492006550 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 642492006551 phosphopeptide binding site; other site 642492006552 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 642492006553 AAA domain; Region: AAA_31; pfam13614 642492006554 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 642492006555 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 642492006556 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 642492006557 active site 642492006558 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 642492006559 Uncharacterized conserved protein [Function unknown]; Region: COG0327 642492006560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 642492006561 Uncharacterized conserved protein [Function unknown]; Region: COG0327 642492006562 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 642492006563 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 642492006564 Family of unknown function (DUF633); Region: DUF633; pfam04816 642492006565 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 642492006566 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 642492006567 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 642492006568 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006569 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492006570 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 642492006571 DNA binding residues [nucleotide binding] 642492006572 DNA primase; Validated; Region: dnaG; PRK05667 642492006573 CHC2 zinc finger; Region: zf-CHC2; pfam01807 642492006574 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 642492006575 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 642492006576 active site 642492006577 metal binding site [ion binding]; metal-binding site 642492006578 interdomain interaction site; other site 642492006579 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 642492006580 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 642492006581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492006582 Zn2+ binding site [ion binding]; other site 642492006583 Mg2+ binding site [ion binding]; other site 642492006584 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 642492006585 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 642492006586 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 642492006587 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 642492006588 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 642492006589 pyruvate phosphate dikinase; Provisional; Region: PRK09279 642492006590 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 642492006591 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 642492006592 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 642492006593 glycyl-tRNA synthetase; Provisional; Region: PRK04173 642492006594 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 642492006595 motif 1; other site 642492006596 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 642492006597 active site 642492006598 motif 2; other site 642492006599 motif 3; other site 642492006600 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 642492006601 anticodon binding site; other site 642492006602 Putative zinc-finger; Region: zf-HC2; pfam13490 642492006603 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 642492006604 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006605 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 642492006606 DNA binding residues [nucleotide binding] 642492006607 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 642492006608 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 642492006609 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 642492006610 active site 642492006611 catalytic residues [active] 642492006612 DNA binding site [nucleotide binding] 642492006613 Int/Topo IB signature motif; other site 642492006614 Winged helix-turn helix; Region: HTH_29; pfam13551 642492006615 Homeodomain-like domain; Region: HTH_23; pfam13384 642492006616 Homeodomain-like domain; Region: HTH_32; pfam13565 642492006617 Winged helix-turn helix; Region: HTH_33; pfam13592 642492006618 DDE superfamily endonuclease; Region: DDE_3; pfam13358 642492006619 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 642492006620 DEAD-like helicases superfamily; Region: DEXDc; smart00487 642492006621 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 642492006622 ATP binding site [chemical binding]; other site 642492006623 putative Mg++ binding site [ion binding]; other site 642492006624 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 642492006625 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492006626 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 642492006627 catalytic residues [active] 642492006628 catalytic nucleophile [active] 642492006629 Presynaptic Site I dimer interface [polypeptide binding]; other site 642492006630 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 642492006631 Synaptic Flat tetramer interface [polypeptide binding]; other site 642492006632 Synaptic Site I dimer interface [polypeptide binding]; other site 642492006633 DNA binding site [nucleotide binding] 642492006634 Restriction endonuclease; Region: Mrr_cat; pfam04471 642492006635 Protein of unknown function DUF262; Region: DUF262; pfam03235 642492006636 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 642492006637 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492006638 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 642492006639 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 642492006640 FAD binding domain; Region: FAD_binding_4; pfam01565 642492006641 Berberine and berberine like; Region: BBE; pfam08031 642492006642 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492006643 FOG: PKD repeat [General function prediction only]; Region: COG3291 642492006644 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 642492006645 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 642492006646 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 642492006647 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 642492006648 Peptidase family U32; Region: Peptidase_U32; pfam01136 642492006649 Collagenase; Region: DUF3656; pfam12392 642492006650 Peptidase family U32; Region: Peptidase_U32; cl03113 642492006651 Cell division protein ZapA; Region: ZapA; pfam05164 642492006652 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 642492006653 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 642492006654 Walker A motif; other site 642492006655 ATP binding site [chemical binding]; other site 642492006656 Walker B motif; other site 642492006657 arginine finger; other site 642492006658 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 642492006659 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 642492006660 RuvA N terminal domain; Region: RuvA_N; pfam01330 642492006661 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 642492006662 gamma-glutamyl kinase; Provisional; Region: PRK05429 642492006663 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 642492006664 nucleotide binding site [chemical binding]; other site 642492006665 homotetrameric interface [polypeptide binding]; other site 642492006666 putative phosphate binding site [ion binding]; other site 642492006667 putative allosteric binding site; other site 642492006668 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 642492006669 CAP-like domain; other site 642492006670 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 642492006671 active site 642492006672 primary dimer interface [polypeptide binding]; other site 642492006673 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 642492006674 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 642492006675 Mg2+ binding site [ion binding]; other site 642492006676 G-X-G motif; other site 642492006677 DNA gyrase B; Region: DNA_gyraseB; pfam00204 642492006678 ATP binding site [chemical binding]; other site 642492006679 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 642492006680 active site 642492006681 putative metal-binding site [ion binding]; other site 642492006682 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 642492006683 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 642492006684 active site 642492006685 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 642492006686 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 642492006687 active site 642492006688 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 642492006689 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 642492006690 oligomer interface [polypeptide binding]; other site 642492006691 putative active site [active] 642492006692 metal binding site [ion binding]; metal-binding site 642492006693 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 642492006694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 642492006695 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 642492006696 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 642492006697 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492006698 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492006699 PAS domain; Region: PAS; smart00091 642492006700 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 642492006701 catalytic loop [active] 642492006702 iron binding site [ion binding]; other site 642492006703 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 642492006704 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 642492006705 4Fe-4S binding domain; Region: Fer4; pfam00037 642492006706 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492006707 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 642492006708 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 642492006709 dimer interface [polypeptide binding]; other site 642492006710 [2Fe-2S] cluster binding site [ion binding]; other site 642492006711 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 642492006712 SLBB domain; Region: SLBB; pfam10531 642492006713 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 642492006714 4Fe-4S binding domain; Region: Fer4; pfam00037 642492006715 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492006716 4Fe-4S binding domain; Region: Fer4; pfam00037 642492006717 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 642492006718 dimer interface [polypeptide binding]; other site 642492006719 [2Fe-2S] cluster binding site [ion binding]; other site 642492006720 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 642492006721 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 642492006722 putative dimer interface [polypeptide binding]; other site 642492006723 [2Fe-2S] cluster binding site [ion binding]; other site 642492006724 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 642492006725 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 642492006726 active site 642492006727 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 642492006728 4Fe-4S binding domain; Region: Fer4; pfam00037 642492006729 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 642492006730 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 642492006731 Putative Fe-S cluster; Region: FeS; cl17515 642492006732 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 642492006733 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 642492006734 ATP binding site [chemical binding]; other site 642492006735 Mg2+ binding site [ion binding]; other site 642492006736 G-X-G motif; other site 642492006737 DRTGG domain; Region: DRTGG; pfam07085 642492006738 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 642492006739 Divergent AAA domain; Region: AAA_4; pfam04326 642492006740 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 642492006741 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 642492006742 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 642492006743 CAAX protease self-immunity; Region: Abi; pfam02517 642492006744 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 642492006745 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 642492006746 RNase E interface [polypeptide binding]; other site 642492006747 trimer interface [polypeptide binding]; other site 642492006748 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 642492006749 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 642492006750 oligomer interface [polypeptide binding]; other site 642492006751 RNA binding site [nucleotide binding]; other site 642492006752 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 642492006753 putative nucleic acid binding region [nucleotide binding]; other site 642492006754 G-X-X-G motif; other site 642492006755 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 642492006756 RNA binding site [nucleotide binding]; other site 642492006757 domain interface; other site 642492006758 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 642492006759 16S/18S rRNA binding site [nucleotide binding]; other site 642492006760 S13e-L30e interaction site [polypeptide binding]; other site 642492006761 25S rRNA binding site [nucleotide binding]; other site 642492006762 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 642492006763 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 642492006764 active site 642492006765 Riboflavin kinase; Region: Flavokinase; pfam01687 642492006766 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 642492006767 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 642492006768 RNA binding site [nucleotide binding]; other site 642492006769 active site 642492006770 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 642492006771 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 642492006772 translation initiation factor IF-2; Region: IF-2; TIGR00487 642492006773 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 642492006774 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 642492006775 G1 box; other site 642492006776 putative GEF interaction site [polypeptide binding]; other site 642492006777 GTP/Mg2+ binding site [chemical binding]; other site 642492006778 Switch I region; other site 642492006779 G2 box; other site 642492006780 G3 box; other site 642492006781 Switch II region; other site 642492006782 G4 box; other site 642492006783 G5 box; other site 642492006784 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 642492006785 Translation-initiation factor 2; Region: IF-2; pfam11987 642492006786 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 642492006787 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 642492006788 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 642492006789 putative RNA binding cleft [nucleotide binding]; other site 642492006790 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 642492006791 NusA N-terminal domain; Region: NusA_N; pfam08529 642492006792 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 642492006793 RNA binding site [nucleotide binding]; other site 642492006794 homodimer interface [polypeptide binding]; other site 642492006795 NusA-like KH domain; Region: KH_5; pfam13184 642492006796 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 642492006797 G-X-X-G motif; other site 642492006798 Sm and related proteins; Region: Sm_like; cl00259 642492006799 ribosome maturation protein RimP; Reviewed; Region: PRK00092 642492006800 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 642492006801 putative oligomer interface [polypeptide binding]; other site 642492006802 putative RNA binding site [nucleotide binding]; other site 642492006803 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 642492006804 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 642492006805 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 642492006806 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 642492006807 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 642492006808 active site 642492006809 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 642492006810 protein binding site [polypeptide binding]; other site 642492006811 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 642492006812 putative substrate binding region [chemical binding]; other site 642492006813 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 642492006814 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 642492006815 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 642492006816 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 642492006817 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 642492006818 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 642492006819 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 642492006820 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 642492006821 catalytic residue [active] 642492006822 putative FPP diphosphate binding site; other site 642492006823 putative FPP binding hydrophobic cleft; other site 642492006824 dimer interface [polypeptide binding]; other site 642492006825 putative IPP diphosphate binding site; other site 642492006826 ribosome recycling factor; Reviewed; Region: frr; PRK00083 642492006827 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 642492006828 hinge region; other site 642492006829 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 642492006830 putative nucleotide binding site [chemical binding]; other site 642492006831 uridine monophosphate binding site [chemical binding]; other site 642492006832 homohexameric interface [polypeptide binding]; other site 642492006833 elongation factor Ts; Provisional; Region: tsf; PRK09377 642492006834 UBA/TS-N domain; Region: UBA; pfam00627 642492006835 Elongation factor TS; Region: EF_TS; pfam00889 642492006836 Elongation factor TS; Region: EF_TS; pfam00889 642492006837 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 642492006838 rRNA interaction site [nucleotide binding]; other site 642492006839 S8 interaction site; other site 642492006840 putative laminin-1 binding site; other site 642492006841 YceG-like family; Region: YceG; pfam02618 642492006842 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 642492006843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492006844 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 642492006845 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 642492006846 DNA binding residues [nucleotide binding] 642492006847 CheD chemotactic sensory transduction; Region: CheD; cl00810 642492006848 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 642492006849 CheC-like family; Region: CheC; pfam04509 642492006850 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 642492006851 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 642492006852 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 642492006853 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 642492006854 putative binding surface; other site 642492006855 active site 642492006856 P2 response regulator binding domain; Region: P2; pfam07194 642492006857 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 642492006858 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 642492006859 ATP binding site [chemical binding]; other site 642492006860 Mg2+ binding site [ion binding]; other site 642492006861 G-X-G motif; other site 642492006862 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 642492006863 CheB methylesterase; Region: CheB_methylest; pfam01339 642492006864 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 642492006865 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 642492006866 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 642492006867 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 642492006868 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 642492006869 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 642492006870 FHIPEP family; Region: FHIPEP; pfam00771 642492006871 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 642492006872 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 642492006873 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 642492006874 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 642492006875 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 642492006876 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 642492006877 Response regulator receiver domain; Region: Response_reg; pfam00072 642492006878 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 642492006879 active site 642492006880 phosphorylation site [posttranslational modification] 642492006881 intermolecular recognition site; other site 642492006882 dimerization interface [polypeptide binding]; other site 642492006883 flagellar motor switch protein; Validated; Region: PRK08119 642492006884 CheC-like family; Region: CheC; pfam04509 642492006885 CheC-like family; Region: CheC; pfam04509 642492006886 flagellar motor switch protein FliN; Region: fliN; TIGR02480 642492006887 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 642492006888 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 642492006889 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 642492006890 flagellar motor protein MotS; Reviewed; Region: PRK06925 642492006891 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 642492006892 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 642492006893 ligand binding site [chemical binding]; other site 642492006894 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 642492006895 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 642492006896 Flagellar protein (FlbD); Region: FlbD; pfam06289 642492006897 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 642492006898 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 642492006899 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 642492006900 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 642492006901 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 642492006902 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 642492006903 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 642492006904 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 642492006905 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 642492006906 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 642492006907 Walker A motif/ATP binding site; other site 642492006908 Walker B motif; other site 642492006909 flagellar assembly protein H; Validated; Region: fliH; PRK06669 642492006910 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 642492006911 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 642492006912 MgtE intracellular N domain; Region: MgtE_N; cl15244 642492006913 FliG C-terminal domain; Region: FliG_C; pfam01706 642492006914 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 642492006915 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 642492006916 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 642492006917 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 642492006918 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 642492006919 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 642492006920 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 642492006921 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 642492006922 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 642492006923 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 642492006924 tetramer interface [polypeptide binding]; other site 642492006925 active site 642492006926 phosphodiesterase; Provisional; Region: PRK12704 642492006927 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 642492006928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492006929 Zn2+ binding site [ion binding]; other site 642492006930 Mg2+ binding site [ion binding]; other site 642492006931 recombinase A; Provisional; Region: recA; PRK09354 642492006932 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 642492006933 hexamer interface [polypeptide binding]; other site 642492006934 Walker A motif; other site 642492006935 ATP binding site [chemical binding]; other site 642492006936 Walker B motif; other site 642492006937 Competence-damaged protein; Region: CinA; pfam02464 642492006938 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 642492006939 putative MPT binding site; other site 642492006940 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 642492006941 Protein of unknown function, DUF624; Region: DUF624; pfam04854 642492006942 argininosuccinate synthase; Provisional; Region: PRK13820 642492006943 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 642492006944 ANP binding site [chemical binding]; other site 642492006945 Substrate Binding Site II [chemical binding]; other site 642492006946 Substrate Binding Site I [chemical binding]; other site 642492006947 argininosuccinate lyase; Provisional; Region: PRK00855 642492006948 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 642492006949 active sites [active] 642492006950 tetramer interface [polypeptide binding]; other site 642492006951 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492006952 DNA topoisomerase 2; Provisional; Region: PLN03128 642492006953 glycogen branching enzyme; Provisional; Region: PRK05402 642492006954 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 642492006955 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 642492006956 active site 642492006957 catalytic site [active] 642492006958 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 642492006959 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 642492006960 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 642492006961 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492006962 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 642492006963 Soluble P-type ATPase [General function prediction only]; Region: COG4087 642492006964 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 642492006965 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 642492006966 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 642492006967 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 642492006968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 642492006969 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 642492006970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 642492006971 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 642492006972 active site 642492006973 homotetramer interface [polypeptide binding]; other site 642492006974 homodimer interface [polypeptide binding]; other site 642492006975 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 642492006976 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 642492006977 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 642492006978 metal binding site [ion binding]; metal-binding site 642492006979 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 642492006980 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 642492006981 substrate binding site [chemical binding]; other site 642492006982 glutamase interaction surface [polypeptide binding]; other site 642492006983 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 642492006984 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 642492006985 catalytic residues [active] 642492006986 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 642492006987 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 642492006988 putative active site [active] 642492006989 oxyanion strand; other site 642492006990 catalytic triad [active] 642492006991 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 642492006992 putative active site pocket [active] 642492006993 4-fold oligomerization interface [polypeptide binding]; other site 642492006994 metal binding residues [ion binding]; metal-binding site 642492006995 3-fold/trimer interface [polypeptide binding]; other site 642492006996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492006997 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492006998 Coenzyme A binding pocket [chemical binding]; other site 642492006999 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 642492007000 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 642492007001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492007002 homodimer interface [polypeptide binding]; other site 642492007003 catalytic residue [active] 642492007004 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 642492007005 histidinol dehydrogenase; Region: hisD; TIGR00069 642492007006 NAD binding site [chemical binding]; other site 642492007007 dimerization interface [polypeptide binding]; other site 642492007008 product binding site; other site 642492007009 substrate binding site [chemical binding]; other site 642492007010 zinc binding site [ion binding]; other site 642492007011 catalytic residues [active] 642492007012 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 642492007013 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 642492007014 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 642492007015 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 642492007016 dimer interface [polypeptide binding]; other site 642492007017 motif 1; other site 642492007018 active site 642492007019 motif 2; other site 642492007020 motif 3; other site 642492007021 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 642492007022 Sel1-like repeats; Region: SEL1; smart00671 642492007023 Sel1-like repeats; Region: SEL1; smart00671 642492007024 Sel1-like repeats; Region: SEL1; smart00671 642492007025 Sel1 repeat; Region: Sel1; cl02723 642492007026 Protein phosphatase 2C; Region: PP2C_2; pfam13672 642492007027 active site 642492007028 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 642492007029 metal ion-dependent adhesion site (MIDAS); other site 642492007030 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 642492007031 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 642492007032 active site 642492007033 ATP binding site [chemical binding]; other site 642492007034 substrate binding site [chemical binding]; other site 642492007035 activation loop (A-loop); other site 642492007036 methionine sulfoxide reductase A; Provisional; Region: PRK14054 642492007037 methionine sulfoxide reductase B; Provisional; Region: PRK00222 642492007038 SelR domain; Region: SelR; pfam01641 642492007039 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492007040 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 642492007041 putative efflux protein, MATE family; Region: matE; TIGR00797 642492007042 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492007043 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007044 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492007045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007046 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492007047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492007048 Zn2+ binding site [ion binding]; other site 642492007049 Mg2+ binding site [ion binding]; other site 642492007050 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492007051 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492007052 dimer interface [polypeptide binding]; other site 642492007053 conserved gate region; other site 642492007054 putative PBP binding loops; other site 642492007055 ABC-ATPase subunit interface; other site 642492007056 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492007057 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 642492007058 Walker A/P-loop; other site 642492007059 ATP binding site [chemical binding]; other site 642492007060 Q-loop/lid; other site 642492007061 ABC transporter signature motif; other site 642492007062 Walker B; other site 642492007063 D-loop; other site 642492007064 H-loop/switch region; other site 642492007065 NMT1/THI5 like; Region: NMT1; pfam09084 642492007066 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 642492007067 substrate binding pocket [chemical binding]; other site 642492007068 membrane-bound complex binding site; other site 642492007069 aromatic acid decarboxylase; Validated; Region: PRK05920 642492007070 Flavoprotein; Region: Flavoprotein; pfam02441 642492007071 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 642492007072 UbiA prenyltransferase family; Region: UbiA; pfam01040 642492007073 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 642492007074 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 642492007075 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 642492007076 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 642492007077 inhibitor-cofactor binding pocket; inhibition site 642492007078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492007079 catalytic residue [active] 642492007080 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 642492007081 Peptidase family U32; Region: Peptidase_U32; pfam01136 642492007082 Peptidase family U32; Region: Peptidase_U32; cl03113 642492007083 FOG: CBS domain [General function prediction only]; Region: COG0517 642492007084 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 642492007085 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492007086 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 642492007087 putative active site pocket [active] 642492007088 cleavage site 642492007089 Predicted membrane protein [Function unknown]; Region: COG4684 642492007090 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492007091 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 642492007092 putative active site [active] 642492007093 putative metal binding site [ion binding]; other site 642492007094 TIR domain; Region: TIR_2; pfam13676 642492007095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 642492007096 NAD-dependent deacetylase; Provisional; Region: PRK00481 642492007097 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 642492007098 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 642492007099 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 642492007100 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 642492007101 Walker A motif; other site 642492007102 ATP binding site [chemical binding]; other site 642492007103 Walker B motif; other site 642492007104 arginine finger; other site 642492007105 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 642492007106 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 642492007107 ATP binding site [chemical binding]; other site 642492007108 Mg++ binding site [ion binding]; other site 642492007109 motif III; other site 642492007110 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 642492007111 nucleotide binding region [chemical binding]; other site 642492007112 ATP-binding site [chemical binding]; other site 642492007113 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 642492007114 RNA binding site [nucleotide binding]; other site 642492007115 Predicted membrane protein [Function unknown]; Region: COG2364 642492007116 DNA polymerase III PolC; Validated; Region: polC; PRK00448 642492007117 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 642492007118 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 642492007119 generic binding surface II; other site 642492007120 generic binding surface I; other site 642492007121 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 642492007122 active site 642492007123 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 642492007124 active site 642492007125 catalytic site [active] 642492007126 substrate binding site [chemical binding]; other site 642492007127 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 642492007128 precorrin-3B synthase; Region: CobG; TIGR02435 642492007129 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492007130 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 642492007131 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492007132 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 642492007133 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 642492007134 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 642492007135 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 642492007136 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 642492007137 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 642492007138 TraX protein; Region: TraX; pfam05857 642492007139 Hemerythrin; Region: Hemerythrin; cd12107 642492007140 Fe binding site [ion binding]; other site 642492007141 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 642492007142 ArsC family; Region: ArsC; pfam03960 642492007143 putative ArsC-like catalytic residues; other site 642492007144 putative TRX-like catalytic residues [active] 642492007145 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 642492007146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492007148 Coenzyme A binding pocket [chemical binding]; other site 642492007149 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 642492007150 metal binding site 2 [ion binding]; metal-binding site 642492007151 putative DNA binding helix; other site 642492007152 metal binding site 1 [ion binding]; metal-binding site 642492007153 dimer interface [polypeptide binding]; other site 642492007154 structural Zn2+ binding site [ion binding]; other site 642492007155 hypothetical protein; Validated; Region: PRK07682 642492007156 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 642492007157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492007158 homodimer interface [polypeptide binding]; other site 642492007159 catalytic residue [active] 642492007160 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 642492007161 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 642492007162 AsnC family; Region: AsnC_trans_reg; pfam01037 642492007163 SpoVA protein; Region: SpoVA; cl04298 642492007164 stage V sporulation protein AD; Provisional; Region: PRK12404 642492007165 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 642492007166 SpoVA protein; Region: SpoVA; cl04298 642492007167 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 642492007168 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 642492007169 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 642492007170 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 642492007171 FeS/SAM binding site; other site 642492007172 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 642492007173 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 642492007174 putative active site [active] 642492007175 dimerization interface [polypeptide binding]; other site 642492007176 putative tRNAtyr binding site [nucleotide binding]; other site 642492007177 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 642492007178 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492007179 Zn2+ binding site [ion binding]; other site 642492007180 Mg2+ binding site [ion binding]; other site 642492007181 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 642492007182 synthetase active site [active] 642492007183 NTP binding site [chemical binding]; other site 642492007184 metal binding site [ion binding]; metal-binding site 642492007185 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 642492007186 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 642492007187 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492007188 active site 642492007189 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 642492007190 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 642492007191 RNA binding site [nucleotide binding]; other site 642492007192 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 642492007193 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 642492007194 putative ATP binding site [chemical binding]; other site 642492007195 putative substrate interface [chemical binding]; other site 642492007196 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 642492007197 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 642492007198 catalytic residues [active] 642492007199 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 642492007200 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 642492007201 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492007202 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492007203 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 642492007204 active site residue [active] 642492007205 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 642492007206 CPxP motif; other site 642492007207 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 642492007208 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 642492007209 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 642492007210 ligand binding site [chemical binding]; other site 642492007211 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 642492007212 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492007213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007214 Coenzyme A binding pocket [chemical binding]; other site 642492007215 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492007216 Iron permease FTR1 family; Region: FTR1; cl00475 642492007217 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492007218 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007219 dimer interface [polypeptide binding]; other site 642492007220 putative CheW interface [polypeptide binding]; other site 642492007221 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 642492007222 Protein export membrane protein; Region: SecD_SecF; pfam02355 642492007223 protein-export membrane protein SecD; Region: secD; TIGR01129 642492007224 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 642492007225 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 642492007226 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 642492007227 FeS/SAM binding site; other site 642492007228 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 642492007229 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 642492007230 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 642492007231 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 642492007232 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 642492007233 active site 642492007234 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 642492007235 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492007236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492007237 Walker A/P-loop; other site 642492007238 ATP binding site [chemical binding]; other site 642492007239 Q-loop/lid; other site 642492007240 ABC transporter signature motif; other site 642492007241 Walker B; other site 642492007242 D-loop; other site 642492007243 H-loop/switch region; other site 642492007244 ABC transporter; Region: ABC_tran_2; pfam12848 642492007245 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492007246 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492007247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492007248 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 642492007249 Walker A/P-loop; other site 642492007250 ATP binding site [chemical binding]; other site 642492007251 Q-loop/lid; other site 642492007252 ABC transporter signature motif; other site 642492007253 Walker B; other site 642492007254 D-loop; other site 642492007255 H-loop/switch region; other site 642492007256 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492007257 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492007258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492007259 Walker A/P-loop; other site 642492007260 ATP binding site [chemical binding]; other site 642492007261 Q-loop/lid; other site 642492007262 ABC transporter signature motif; other site 642492007263 Walker B; other site 642492007264 D-loop; other site 642492007265 H-loop/switch region; other site 642492007266 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492007267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492007268 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 642492007269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007270 Coenzyme A binding pocket [chemical binding]; other site 642492007271 sugar phosphate phosphatase; Provisional; Region: PRK10513 642492007272 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 642492007273 active site 642492007274 motif I; other site 642492007275 motif II; other site 642492007276 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 642492007277 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 642492007278 MPT binding site; other site 642492007279 trimer interface [polypeptide binding]; other site 642492007280 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 642492007281 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 642492007282 catalytic domain interface [polypeptide binding]; other site 642492007283 homodimer interface [polypeptide binding]; other site 642492007284 putative active site [active] 642492007285 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 642492007286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492007287 ABC transporter signature motif; other site 642492007288 Walker B; other site 642492007289 D-loop; other site 642492007290 H-loop/switch region; other site 642492007291 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 642492007292 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 642492007293 putative dimer interface [polypeptide binding]; other site 642492007294 putative anticodon binding site; other site 642492007295 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 642492007296 homodimer interface [polypeptide binding]; other site 642492007297 motif 1; other site 642492007298 motif 2; other site 642492007299 active site 642492007300 motif 3; other site 642492007301 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 642492007302 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 642492007303 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 642492007304 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 642492007305 TrkA-N domain; Region: TrkA_N; pfam02254 642492007306 TrkA-C domain; Region: TrkA_C; pfam02080 642492007307 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 642492007308 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 642492007309 pyruvate kinase; Provisional; Region: PRK06354 642492007310 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 642492007311 domain interfaces; other site 642492007312 active site 642492007313 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 642492007314 6-phosphofructokinase; Provisional; Region: PRK03202 642492007315 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 642492007316 active site 642492007317 ADP/pyrophosphate binding site [chemical binding]; other site 642492007318 dimerization interface [polypeptide binding]; other site 642492007319 allosteric effector site; other site 642492007320 fructose-1,6-bisphosphate binding site; other site 642492007321 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 642492007322 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 642492007323 active site 642492007324 PHP Thumb interface [polypeptide binding]; other site 642492007325 metal binding site [ion binding]; metal-binding site 642492007326 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 642492007327 generic binding surface II; other site 642492007328 generic binding surface I; other site 642492007329 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 642492007330 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 642492007331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492007332 homodimer interface [polypeptide binding]; other site 642492007333 catalytic residue [active] 642492007334 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492007335 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492007336 dimer interface [polypeptide binding]; other site 642492007337 conserved gate region; other site 642492007338 putative PBP binding loops; other site 642492007339 ABC-ATPase subunit interface; other site 642492007340 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 642492007341 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492007342 dimer interface [polypeptide binding]; other site 642492007343 conserved gate region; other site 642492007344 putative PBP binding loops; other site 642492007345 ABC-ATPase subunit interface; other site 642492007346 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492007347 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492007348 Response regulator receiver domain; Region: Response_reg; pfam00072 642492007349 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 642492007350 active site 642492007351 phosphorylation site [posttranslational modification] 642492007352 intermolecular recognition site; other site 642492007353 dimerization interface [polypeptide binding]; other site 642492007354 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492007355 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 642492007356 Histidine kinase; Region: His_kinase; pfam06580 642492007357 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 642492007358 ATP binding site [chemical binding]; other site 642492007359 Mg2+ binding site [ion binding]; other site 642492007360 G-X-G motif; other site 642492007361 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 642492007362 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492007363 Probable beta-xylosidase; Provisional; Region: PLN03080 642492007364 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 642492007365 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 642492007366 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492007367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007368 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 642492007369 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 642492007370 putative tRNA-binding site [nucleotide binding]; other site 642492007371 B3/4 domain; Region: B3_4; pfam03483 642492007372 tRNA synthetase B5 domain; Region: B5; smart00874 642492007373 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 642492007374 dimer interface [polypeptide binding]; other site 642492007375 motif 1; other site 642492007376 motif 3; other site 642492007377 motif 2; other site 642492007378 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 642492007379 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 642492007380 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 642492007381 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 642492007382 dimer interface [polypeptide binding]; other site 642492007383 motif 1; other site 642492007384 active site 642492007385 motif 2; other site 642492007386 motif 3; other site 642492007387 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492007388 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 642492007389 Dockerin type I repeat; Region: Dockerin_1; pfam00404 642492007390 Cellulose binding domain; Region: CBM_3; pfam00942 642492007391 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492007392 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 642492007393 dockerin binding interface; other site 642492007394 6-phosphofructokinase; Provisional; Region: PRK14072 642492007395 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 642492007396 active site 642492007397 ADP/pyrophosphate binding site [chemical binding]; other site 642492007398 dimerization interface [polypeptide binding]; other site 642492007399 allosteric effector site; other site 642492007400 fructose-1,6-bisphosphate binding site; other site 642492007401 prephenate dehydrogenase; Validated; Region: PRK06545 642492007402 prephenate dehydrogenase; Validated; Region: PRK08507 642492007403 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 642492007404 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492007405 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 642492007406 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 642492007407 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 642492007408 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 642492007409 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 642492007410 ATP binding site [chemical binding]; other site 642492007411 Mg++ binding site [ion binding]; other site 642492007412 motif III; other site 642492007413 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 642492007414 nucleotide binding region [chemical binding]; other site 642492007415 ATP-binding site [chemical binding]; other site 642492007416 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 642492007417 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 642492007418 motif II; other site 642492007419 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492007420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007421 Coenzyme A binding pocket [chemical binding]; other site 642492007422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 642492007423 Coat F domain; Region: Coat_F; pfam07875 642492007424 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 642492007425 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 642492007426 Homeodomain-like domain; Region: HTH_23; pfam13384 642492007427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492007428 Transposase; Region: HTH_Tnp_1; cl17663 642492007429 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 642492007430 Domain of unknown function DUF87; Region: DUF87; pfam01935 642492007431 HerA helicase [Replication, recombination, and repair]; Region: COG0433 642492007432 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 642492007433 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 642492007434 multiple promoter invertase; Provisional; Region: mpi; PRK13413 642492007435 catalytic residues [active] 642492007436 catalytic nucleophile [active] 642492007437 Presynaptic Site I dimer interface [polypeptide binding]; other site 642492007438 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 642492007439 Synaptic Flat tetramer interface [polypeptide binding]; other site 642492007440 Synaptic Site I dimer interface [polypeptide binding]; other site 642492007441 DNA binding site [nucleotide binding] 642492007442 CHC2 zinc finger; Region: zf-CHC2; cl17510 642492007443 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 642492007444 active site 642492007445 metal binding site [ion binding]; metal-binding site 642492007446 interdomain interaction site; other site 642492007447 D5 N terminal like; Region: D5_N; pfam08706 642492007448 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 642492007449 Helix-turn-helix domain; Region: HTH_17; pfam12728 642492007450 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 642492007451 sequence-specific DNA binding site [nucleotide binding]; other site 642492007452 salt bridge; other site 642492007453 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 642492007454 non-specific DNA binding site [nucleotide binding]; other site 642492007455 salt bridge; other site 642492007456 sequence-specific DNA binding site [nucleotide binding]; other site 642492007457 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 642492007458 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 642492007459 Int/Topo IB signature motif; other site 642492007460 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 642492007461 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 642492007462 dimer interface [polypeptide binding]; other site 642492007463 ssDNA binding site [nucleotide binding]; other site 642492007464 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492007465 tellurium resistance terB-like protein; Region: terB_like; cd07177 642492007466 metal binding site [ion binding]; metal-binding site 642492007467 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 642492007468 HSP70 interaction site [polypeptide binding]; other site 642492007469 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 642492007470 dihydrodipicolinate synthase; Region: dapA; TIGR00674 642492007471 dimer interface [polypeptide binding]; other site 642492007472 active site 642492007473 catalytic residue [active] 642492007474 ERF superfamily; Region: ERF; pfam04404 642492007475 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 642492007476 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 642492007477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492007478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492007479 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 642492007480 putative dimerization interface [polypeptide binding]; other site 642492007481 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 642492007482 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 642492007483 motif II; other site 642492007484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492007485 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 642492007486 Walker A/P-loop; other site 642492007487 ATP binding site [chemical binding]; other site 642492007488 Q-loop/lid; other site 642492007489 ABC transporter signature motif; other site 642492007490 Walker B; other site 642492007491 D-loop; other site 642492007492 H-loop/switch region; other site 642492007493 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 642492007494 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 642492007495 DXD motif; other site 642492007496 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492007497 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 642492007498 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 642492007499 HlyD family secretion protein; Region: HlyD_3; pfam13437 642492007500 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492007501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492007502 dimer interface [polypeptide binding]; other site 642492007503 conserved gate region; other site 642492007504 putative PBP binding loops; other site 642492007505 ABC-ATPase subunit interface; other site 642492007506 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492007507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492007508 dimer interface [polypeptide binding]; other site 642492007509 conserved gate region; other site 642492007510 putative PBP binding loops; other site 642492007511 ABC-ATPase subunit interface; other site 642492007512 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492007513 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492007514 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 642492007515 active site 642492007516 phosphorylation site [posttranslational modification] 642492007517 intermolecular recognition site; other site 642492007518 dimerization interface [polypeptide binding]; other site 642492007519 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 642492007520 DNA binding site [nucleotide binding] 642492007521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492007522 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 642492007523 dimer interface [polypeptide binding]; other site 642492007524 phosphorylation site [posttranslational modification] 642492007525 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 642492007526 ATP binding site [chemical binding]; other site 642492007527 Mg2+ binding site [ion binding]; other site 642492007528 G-X-G motif; other site 642492007529 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 642492007530 homotrimer interaction site [polypeptide binding]; other site 642492007531 putative active site [active] 642492007532 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 642492007533 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 642492007534 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492007535 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 642492007536 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 642492007537 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 642492007538 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 642492007539 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 642492007540 heme binding pocket [chemical binding]; other site 642492007541 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 642492007542 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 642492007543 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 642492007544 FeS/SAM binding site; other site 642492007545 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 642492007546 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 642492007547 FeS/SAM binding site; other site 642492007548 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 642492007549 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 642492007550 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 642492007551 G1 box; other site 642492007552 GTP/Mg2+ binding site [chemical binding]; other site 642492007553 Switch I region; other site 642492007554 G2 box; other site 642492007555 Switch II region; other site 642492007556 G3 box; other site 642492007557 G4 box; other site 642492007558 G5 box; other site 642492007559 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 642492007560 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 642492007561 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 642492007562 putative L-serine binding site [chemical binding]; other site 642492007563 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 642492007564 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 642492007565 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 642492007566 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 642492007567 Uncharacterized conserved protein [Function unknown]; Region: COG0398 642492007568 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 642492007569 Rhomboid family; Region: Rhomboid; cl11446 642492007570 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 642492007571 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 642492007572 Catalytic site [active] 642492007573 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 642492007574 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 642492007575 putative dimer interface [polypeptide binding]; other site 642492007576 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 642492007577 FAD binding pocket [chemical binding]; other site 642492007578 FAD binding motif [chemical binding]; other site 642492007579 phosphate binding motif [ion binding]; other site 642492007580 beta-alpha-beta structure motif; other site 642492007581 NAD binding pocket [chemical binding]; other site 642492007582 HlyD family secretion protein; Region: HlyD_3; pfam13437 642492007583 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492007584 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492007585 Walker A/P-loop; other site 642492007586 ATP binding site [chemical binding]; other site 642492007587 Q-loop/lid; other site 642492007588 ABC transporter signature motif; other site 642492007589 Walker B; other site 642492007590 D-loop; other site 642492007591 H-loop/switch region; other site 642492007592 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492007593 FtsX-like permease family; Region: FtsX; pfam02687 642492007594 FtsX-like permease family; Region: FtsX; pfam02687 642492007595 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007596 dimer interface [polypeptide binding]; other site 642492007597 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 642492007598 putative CheW interface [polypeptide binding]; other site 642492007599 Uncharacterized conserved protein [Function unknown]; Region: COG3287 642492007600 FIST N domain; Region: FIST; pfam08495 642492007601 FIST C domain; Region: FIST_C; pfam10442 642492007602 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 642492007603 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492007604 Membrane transport protein; Region: Mem_trans; cl09117 642492007605 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 642492007606 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 642492007607 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 642492007608 putative active site [active] 642492007609 putative catalytic site [active] 642492007610 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492007611 Chromate transporter; Region: Chromate_transp; pfam02417 642492007612 Chromate transporter; Region: Chromate_transp; pfam02417 642492007613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492007614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492007615 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 642492007616 putative dimerization interface [polypeptide binding]; other site 642492007617 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492007618 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 642492007619 dimerization interface [polypeptide binding]; other site 642492007620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007621 dimer interface [polypeptide binding]; other site 642492007622 putative CheW interface [polypeptide binding]; other site 642492007623 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 642492007624 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 642492007625 putative active site [active] 642492007626 metal binding site [ion binding]; metal-binding site 642492007627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492007628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492007629 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 642492007630 dimerization interface [polypeptide binding]; other site 642492007631 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 642492007632 Mechanosensitive ion channel; Region: MS_channel; pfam00924 642492007633 Transcriptional regulators [Transcription]; Region: FadR; COG2186 642492007634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492007635 DNA-binding site [nucleotide binding]; DNA binding site 642492007636 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 642492007637 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 642492007638 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 642492007639 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 642492007640 pentamer interface [polypeptide binding]; other site 642492007641 dodecaamer interface [polypeptide binding]; other site 642492007642 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 642492007643 epoxyqueuosine reductase; Region: TIGR00276 642492007644 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 642492007645 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 642492007646 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 642492007647 dimer interface [polypeptide binding]; other site 642492007648 catalytic triad [active] 642492007649 peroxidatic and resolving cysteines [active] 642492007650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 642492007651 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 642492007652 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 642492007653 metal ion-dependent adhesion site (MIDAS); other site 642492007654 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 642492007655 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 642492007656 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 642492007657 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 642492007658 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 642492007659 substrate binding pocket [chemical binding]; other site 642492007660 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 642492007661 B12 binding site [chemical binding]; other site 642492007662 cobalt ligand [ion binding]; other site 642492007663 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 642492007664 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 642492007665 EamA-like transporter family; Region: EamA; pfam00892 642492007666 EamA-like transporter family; Region: EamA; pfam00892 642492007667 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 642492007668 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 642492007669 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 642492007670 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 642492007671 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 642492007672 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 642492007673 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 642492007674 active site 642492007675 NAD binding site [chemical binding]; other site 642492007676 metal binding site [ion binding]; metal-binding site 642492007677 hybrid cluster protein; Provisional; Region: PRK05290 642492007678 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 642492007679 ACS interaction site; other site 642492007680 CODH interaction site; other site 642492007681 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 642492007682 ACS interaction site; other site 642492007683 CODH interaction site; other site 642492007684 metal cluster binding site [ion binding]; other site 642492007685 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 642492007686 S-layer homology domain; Region: SLH; pfam00395 642492007687 S-layer homology domain; Region: SLH; pfam00395 642492007688 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 642492007689 Putative esterase; Region: Esterase; pfam00756 642492007690 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 642492007691 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492007692 putative sugar binding sites [chemical binding]; other site 642492007693 Q-X-W motif; other site 642492007694 CBD_II domain; Region: CBD_II; smart00637 642492007695 Cupin domain; Region: Cupin_2; pfam07883 642492007696 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492007697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007698 Flavodoxin domain; Region: Flavodoxin_5; cl17428 642492007699 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 642492007700 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 642492007701 EcsC protein family; Region: EcsC; pfam12787 642492007702 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 642492007703 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 642492007704 active site 642492007705 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 642492007706 homopentamer interface [polypeptide binding]; other site 642492007707 active site 642492007708 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 642492007709 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 642492007710 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 642492007711 dimerization interface [polypeptide binding]; other site 642492007712 active site 642492007713 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 642492007714 Lumazine binding domain; Region: Lum_binding; pfam00677 642492007715 Lumazine binding domain; Region: Lum_binding; pfam00677 642492007716 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 642492007717 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 642492007718 catalytic motif [active] 642492007719 Zn binding site [ion binding]; other site 642492007720 RibD C-terminal domain; Region: RibD_C; cl17279 642492007721 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 642492007722 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 642492007723 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 642492007724 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 642492007725 G1 box; other site 642492007726 GTP/Mg2+ binding site [chemical binding]; other site 642492007727 Switch I region; other site 642492007728 G2 box; other site 642492007729 G3 box; other site 642492007730 Switch II region; other site 642492007731 G4 box; other site 642492007732 G5 box; other site 642492007733 Nucleoside recognition; Region: Gate; pfam07670 642492007734 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 642492007735 Nucleoside recognition; Region: Gate; pfam07670 642492007736 FeoA domain; Region: FeoA; pfam04023 642492007737 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 642492007738 CotJB protein; Region: CotJB; pfam12652 642492007739 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 642492007740 dinuclear metal binding motif [ion binding]; other site 642492007741 TEA/ATTS domain family; Region: TEA; cl02603 642492007742 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492007743 active site 642492007744 catalytic triad [active] 642492007745 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 642492007746 active site 642492007747 catalytic residues [active] 642492007748 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 642492007749 active site 642492007750 catalytic triad [active] 642492007751 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 642492007752 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492007753 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 642492007754 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 642492007755 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492007756 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 642492007757 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 642492007758 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 642492007759 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 642492007760 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 642492007761 Phage-related minor tail protein [Function unknown]; Region: COG5281 642492007762 tape measure domain; Region: tape_meas_nterm; TIGR02675 642492007763 Phage XkdN-like protein; Region: XkdN; pfam08890 642492007764 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 642492007765 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 642492007766 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 642492007767 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 642492007768 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 642492007769 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 642492007770 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 642492007771 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 642492007772 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 642492007773 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 642492007774 Phage terminase large subunit; Region: Terminase_3; cl12054 642492007775 Terminase-like family; Region: Terminase_6; pfam03237 642492007776 Phage terminase small subunit; Region: Phage_terminase; pfam10668 642492007777 Terminase small subunit; Region: Terminase_2; pfam03592 642492007778 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 642492007779 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 642492007780 active site 642492007781 catalytic residues [active] 642492007782 DNA binding site [nucleotide binding] 642492007783 Int/Topo IB signature motif; other site 642492007784 YopX protein; Region: YopX; pfam09643 642492007785 Stage III sporulation protein D; Region: SpoIIID; cl17560 642492007786 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 642492007787 DNA polymerase III beta subunit, central domain; Region: DNA_pol3_beta_2; pfam02767 642492007788 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 642492007789 hypothetical protein; Validated; Region: PRK08116 642492007790 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 642492007791 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 642492007792 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 642492007793 RecT family; Region: RecT; pfam03837 642492007794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492007795 AAA domain; Region: AAA_23; pfam13476 642492007796 Walker A/P-loop; other site 642492007797 ATP binding site [chemical binding]; other site 642492007798 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 642492007799 non-specific DNA binding site [nucleotide binding]; other site 642492007800 salt bridge; other site 642492007801 sequence-specific DNA binding site [nucleotide binding]; other site 642492007802 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 642492007803 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 642492007804 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 642492007805 BRO family, N-terminal domain; Region: Bro-N; smart01040 642492007806 ORF6C domain; Region: ORF6C; pfam10552 642492007807 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 642492007808 non-specific DNA binding site [nucleotide binding]; other site 642492007809 salt bridge; other site 642492007810 sequence-specific DNA binding site [nucleotide binding]; other site 642492007811 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492007812 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 642492007813 non-specific DNA binding site [nucleotide binding]; other site 642492007814 salt bridge; other site 642492007815 sequence-specific DNA binding site [nucleotide binding]; other site 642492007816 Domain of unknown function (DUF955); Region: DUF955; cl01076 642492007817 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492007818 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 642492007819 catalytic residues [active] 642492007820 catalytic nucleophile [active] 642492007821 Recombinase; Region: Recombinase; pfam07508 642492007822 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 642492007823 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 642492007824 dinuclear metal binding motif [ion binding]; other site 642492007825 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492007826 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492007827 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 642492007828 Coenzyme A binding pocket [chemical binding]; other site 642492007829 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 642492007830 Pectinesterase; Region: Pectinesterase; pfam01095 642492007831 putative pectinesterase; Region: PLN02432; cl01911 642492007832 S-layer homology domain; Region: SLH; pfam00395 642492007833 S-layer homology domain; Region: SLH; pfam00395 642492007834 S-layer homology domain; Region: SLH; pfam00395 642492007835 AAA domain; Region: AAA_21; pfam13304 642492007836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492007837 ABC transporter signature motif; other site 642492007838 Walker B; other site 642492007839 D-loop; other site 642492007840 H-loop/switch region; other site 642492007841 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 642492007842 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 642492007843 putative active site [active] 642492007844 putative NTP binding site [chemical binding]; other site 642492007845 putative nucleic acid binding site [nucleotide binding]; other site 642492007846 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 642492007847 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 642492007848 SmpB-tmRNA interface; other site 642492007849 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 642492007850 EamA-like transporter family; Region: EamA; pfam00892 642492007851 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 642492007852 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 642492007853 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 642492007854 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 642492007855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492007856 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492007857 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 642492007858 amidase catalytic site [active] 642492007859 Zn binding residues [ion binding]; other site 642492007860 substrate binding site [chemical binding]; other site 642492007861 ribonuclease R; Region: RNase_R; TIGR02063 642492007862 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 642492007863 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 642492007864 RNB domain; Region: RNB; pfam00773 642492007865 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 642492007866 RNA binding site [nucleotide binding]; other site 642492007867 Preprotein translocase SecG subunit; Region: SecG; pfam03840 642492007868 enolase; Provisional; Region: eno; PRK00077 642492007869 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 642492007870 dimer interface [polypeptide binding]; other site 642492007871 metal binding site [ion binding]; metal-binding site 642492007872 substrate binding pocket [chemical binding]; other site 642492007873 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492007874 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 642492007875 phosphoglyceromutase; Provisional; Region: PRK05434 642492007876 triosephosphate isomerase; Provisional; Region: PRK14567 642492007877 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 642492007878 substrate binding site [chemical binding]; other site 642492007879 dimer interface [polypeptide binding]; other site 642492007880 catalytic triad [active] 642492007881 Phosphoglycerate kinase; Region: PGK; pfam00162 642492007882 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 642492007883 substrate binding site [chemical binding]; other site 642492007884 hinge regions; other site 642492007885 ADP binding site [chemical binding]; other site 642492007886 catalytic site [active] 642492007887 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 642492007888 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 642492007889 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 642492007890 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 642492007891 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 642492007892 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 642492007893 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007894 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007895 PhoU domain; Region: PhoU; pfam01895 642492007896 PhoU domain; Region: PhoU; pfam01895 642492007897 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 642492007898 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007899 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 642492007900 PhoU domain; Region: PhoU; pfam01895 642492007901 PhoU domain; Region: PhoU; pfam01895 642492007902 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 642492007903 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 642492007904 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 642492007905 trimerization site [polypeptide binding]; other site 642492007906 active site 642492007907 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 642492007908 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 642492007909 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492007910 catalytic residue [active] 642492007911 Predicted transcriptional regulator [Transcription]; Region: COG1959 642492007912 Transcriptional regulator; Region: Rrf2; cl17282 642492007913 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 642492007914 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 642492007915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 642492007916 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 642492007917 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 642492007918 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492007919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492007920 dimer interface [polypeptide binding]; other site 642492007921 putative CheW interface [polypeptide binding]; other site 642492007922 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 642492007923 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492007924 PYR/PP interface [polypeptide binding]; other site 642492007925 dimer interface [polypeptide binding]; other site 642492007926 TPP binding site [chemical binding]; other site 642492007927 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 642492007928 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 642492007929 TPP-binding site [chemical binding]; other site 642492007930 dimer interface [polypeptide binding]; other site 642492007931 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 642492007932 6-phosphogluconate dehydratase; Region: edd; TIGR01196 642492007933 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 642492007934 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 642492007935 homodimer interface [polypeptide binding]; other site 642492007936 substrate-cofactor binding pocket; other site 642492007937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492007938 catalytic residue [active] 642492007939 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 642492007940 tartrate dehydrogenase; Region: TTC; TIGR02089 642492007941 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 642492007942 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 642492007943 substrate binding site [chemical binding]; other site 642492007944 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 642492007945 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 642492007946 active site 642492007947 catalytic residues [active] 642492007948 metal binding site [ion binding]; metal-binding site 642492007949 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 642492007950 2-isopropylmalate synthase; Validated; Region: PRK00915 642492007951 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 642492007952 active site 642492007953 catalytic residues [active] 642492007954 metal binding site [ion binding]; metal-binding site 642492007955 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 642492007956 ketol-acid reductoisomerase; Provisional; Region: PRK05479 642492007957 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 642492007958 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 642492007959 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 642492007960 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 642492007961 putative valine binding site [chemical binding]; other site 642492007962 dimer interface [polypeptide binding]; other site 642492007963 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 642492007964 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 642492007965 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492007966 PYR/PP interface [polypeptide binding]; other site 642492007967 dimer interface [polypeptide binding]; other site 642492007968 TPP binding site [chemical binding]; other site 642492007969 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 642492007970 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 642492007971 TPP-binding site [chemical binding]; other site 642492007972 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 642492007973 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 642492007974 G1 box; other site 642492007975 putative GEF interaction site [polypeptide binding]; other site 642492007976 GTP/Mg2+ binding site [chemical binding]; other site 642492007977 Switch I region; other site 642492007978 G2 box; other site 642492007979 G3 box; other site 642492007980 Switch II region; other site 642492007981 G4 box; other site 642492007982 G5 box; other site 642492007983 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 642492007984 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 642492007985 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492007986 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492007987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492007988 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 642492007989 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492007990 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 642492007991 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492007992 CBD_II domain; Region: CBD_II; smart00637 642492007993 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 642492007994 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492007995 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 642492007996 putative sugar binding sites [chemical binding]; other site 642492007997 Q-X-W motif; other site 642492007998 CBD_II domain; Region: CBD_II; smart00637 642492007999 Cellulose binding domain; Region: CBM_3; cl03026 642492008000 Putative esterase; Region: Esterase; pfam00756 642492008001 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 642492008002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492008003 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492008004 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492008005 putative transposase OrfB; Reviewed; Region: PHA02517 642492008006 HTH-like domain; Region: HTH_21; pfam13276 642492008007 Integrase core domain; Region: rve; pfam00665 642492008008 Integrase core domain; Region: rve_2; pfam13333 642492008009 DNA topoisomerase III; Provisional; Region: PRK07726 642492008010 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 642492008011 active site 642492008012 putative interdomain interaction site [polypeptide binding]; other site 642492008013 putative metal-binding site [ion binding]; other site 642492008014 putative nucleotide binding site [chemical binding]; other site 642492008015 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 642492008016 domain I; other site 642492008017 DNA binding groove [nucleotide binding] 642492008018 phosphate binding site [ion binding]; other site 642492008019 domain II; other site 642492008020 domain III; other site 642492008021 nucleotide binding site [chemical binding]; other site 642492008022 catalytic site [active] 642492008023 domain IV; other site 642492008024 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 642492008025 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 642492008026 Chloramphenicol acetyltransferase; Region: CAT; cl02008 642492008027 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 642492008028 rod shape-determining protein MreC; Provisional; Region: PRK13922 642492008029 Acyltransferase family; Region: Acyl_transf_3; pfam01757 642492008030 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 642492008031 YCII-related domain; Region: YCII; cl00999 642492008032 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 642492008033 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492008034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008035 Coenzyme A binding pocket [chemical binding]; other site 642492008036 Homoserine O-succinyltransferase; Region: HTS; pfam04204 642492008037 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 642492008038 proposed active site lysine [active] 642492008039 conserved cys residue [active] 642492008040 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 642492008041 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 642492008042 synthetase active site [active] 642492008043 NTP binding site [chemical binding]; other site 642492008044 metal binding site [ion binding]; metal-binding site 642492008045 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492008046 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 642492008047 recombination factor protein RarA; Reviewed; Region: PRK13342 642492008048 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 642492008049 Walker A motif; other site 642492008050 ATP binding site [chemical binding]; other site 642492008051 Walker B motif; other site 642492008052 arginine finger; other site 642492008053 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 642492008054 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 642492008055 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 642492008056 putative active site [active] 642492008057 catalytic site [active] 642492008058 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 642492008059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 642492008060 active site 642492008061 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492008062 substrate binding site [chemical binding]; other site 642492008063 catalytic residues [active] 642492008064 dimer interface [polypeptide binding]; other site 642492008065 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492008066 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492008067 dimer interface [polypeptide binding]; other site 642492008068 putative CheW interface [polypeptide binding]; other site 642492008069 Cache domain; Region: Cache_1; pfam02743 642492008070 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 642492008071 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492008072 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 642492008073 active site 642492008074 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 642492008075 Fasciclin domain; Region: Fasciclin; pfam02469 642492008076 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 642492008077 Helix-turn-helix domain; Region: HTH_38; pfam13936 642492008078 Integrase core domain; Region: rve; pfam00665 642492008079 Penicillinase repressor; Region: Pencillinase_R; pfam03965 642492008080 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 642492008081 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 642492008082 Preprotein translocase subunit; Region: YajC; pfam02699 642492008083 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 642492008084 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 642492008085 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 642492008086 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 642492008087 Tetramer interface [polypeptide binding]; other site 642492008088 active site 642492008089 FMN-binding site [chemical binding]; other site 642492008090 CAAX protease self-immunity; Region: Abi; pfam02517 642492008091 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 642492008092 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 642492008093 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 642492008094 putative active site [active] 642492008095 catalytic site [active] 642492008096 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 642492008097 putative active site [active] 642492008098 catalytic site [active] 642492008099 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 642492008100 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 642492008101 active site 1 [active] 642492008102 active site 2 [active] 642492008103 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 642492008104 active site 2 [active] 642492008105 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 642492008106 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 642492008107 YoaP-like; Region: YoaP; pfam14268 642492008108 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 642492008109 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 642492008110 RNA binding surface [nucleotide binding]; other site 642492008111 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 642492008112 active site 642492008113 Stage II sporulation protein; Region: SpoIID; pfam08486 642492008114 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 642492008115 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 642492008116 regulatory protein interface [polypeptide binding]; other site 642492008117 active site 642492008118 regulatory phosphorylation site [posttranslational modification]; other site 642492008119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 642492008120 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 642492008121 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 642492008122 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 642492008123 phosphate binding site [ion binding]; other site 642492008124 putative substrate binding pocket [chemical binding]; other site 642492008125 dimer interface [polypeptide binding]; other site 642492008126 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 642492008127 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 642492008128 FAD binding domain; Region: FAD_binding_4; pfam01565 642492008129 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 642492008130 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 642492008131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492008132 Walker A/P-loop; other site 642492008133 ATP binding site [chemical binding]; other site 642492008134 Q-loop/lid; other site 642492008135 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 642492008136 ABC transporter signature motif; other site 642492008137 Walker B; other site 642492008138 D-loop; other site 642492008139 H-loop/switch region; other site 642492008140 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 642492008141 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 642492008142 active site 642492008143 metal binding site [ion binding]; metal-binding site 642492008144 DNA binding site [nucleotide binding] 642492008145 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 642492008146 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 642492008147 DsrE/DsrF-like family; Region: DrsE; pfam02635 642492008148 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 642492008149 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 642492008150 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 642492008151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492008152 dimer interface [polypeptide binding]; other site 642492008153 conserved gate region; other site 642492008154 putative PBP binding loops; other site 642492008155 ABC-ATPase subunit interface; other site 642492008156 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 642492008157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492008158 dimer interface [polypeptide binding]; other site 642492008159 conserved gate region; other site 642492008160 putative PBP binding loops; other site 642492008161 ABC-ATPase subunit interface; other site 642492008162 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 642492008163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492008164 Walker A/P-loop; other site 642492008165 ATP binding site [chemical binding]; other site 642492008166 Q-loop/lid; other site 642492008167 ABC transporter signature motif; other site 642492008168 Walker B; other site 642492008169 D-loop; other site 642492008170 H-loop/switch region; other site 642492008171 TOBE domain; Region: TOBE_2; pfam08402 642492008172 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 642492008173 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 642492008174 non-specific DNA binding site [nucleotide binding]; other site 642492008175 salt bridge; other site 642492008176 sequence-specific DNA binding site [nucleotide binding]; other site 642492008177 Cupin domain; Region: Cupin_2; pfam07883 642492008178 Outer membrane efflux protein; Region: OEP; pfam02321 642492008179 Outer membrane efflux protein; Region: OEP; pfam02321 642492008180 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492008181 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492008182 FtsX-like permease family; Region: FtsX; pfam02687 642492008183 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492008184 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492008185 FtsX-like permease family; Region: FtsX; pfam02687 642492008186 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492008187 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492008188 Walker A/P-loop; other site 642492008189 ATP binding site [chemical binding]; other site 642492008190 Q-loop/lid; other site 642492008191 ABC transporter signature motif; other site 642492008192 Walker B; other site 642492008193 D-loop; other site 642492008194 H-loop/switch region; other site 642492008195 macrolide transporter subunit MacA; Provisional; Region: PRK11578 642492008196 HlyD family secretion protein; Region: HlyD_3; pfam13437 642492008197 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492008198 carbohydrate binding site [chemical binding]; other site 642492008199 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 642492008200 carbohydrate binding site [chemical binding]; other site 642492008201 pullulanase, type I; Region: pulA_typeI; TIGR02104 642492008202 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 642492008203 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 642492008204 Ca binding site [ion binding]; other site 642492008205 active site 642492008206 catalytic site [active] 642492008207 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 642492008208 Transposase; Region: DEDD_Tnp_IS110; pfam01548 642492008209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 642492008210 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 642492008211 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 642492008212 23S rRNA binding site [nucleotide binding]; other site 642492008213 L21 binding site [polypeptide binding]; other site 642492008214 L13 binding site [polypeptide binding]; other site 642492008215 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 642492008216 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 642492008217 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 642492008218 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 642492008219 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 642492008220 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 642492008221 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 642492008222 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 642492008223 active site 642492008224 dimer interface [polypeptide binding]; other site 642492008225 motif 1; other site 642492008226 motif 2; other site 642492008227 motif 3; other site 642492008228 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 642492008229 anticodon binding site; other site 642492008230 Protein of unknown function (DUF805); Region: DUF805; pfam05656 642492008231 YtxC-like family; Region: YtxC; cl08500 642492008232 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 642492008233 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 642492008234 dimerization interface [polypeptide binding]; other site 642492008235 domain crossover interface; other site 642492008236 redox-dependent activation switch; other site 642492008237 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 642492008238 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 642492008239 S-adenosylmethionine binding site [chemical binding]; other site 642492008240 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 642492008241 Domain of unknown function DUF21; Region: DUF21; pfam01595 642492008242 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 642492008243 Transporter associated domain; Region: CorC_HlyC; smart01091 642492008244 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 642492008245 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 642492008246 dihydrodipicolinate synthase; Region: dapA; TIGR00674 642492008247 dimer interface [polypeptide binding]; other site 642492008248 active site 642492008249 catalytic residue [active] 642492008250 dihydrodipicolinate reductase; Provisional; Region: PRK00048 642492008251 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 642492008252 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 642492008253 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 642492008254 Protein of unknown function DUF45; Region: DUF45; pfam01863 642492008255 single-stranded DNA-binding protein; Provisional; Region: PRK05813 642492008256 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 642492008257 dimer interface [polypeptide binding]; other site 642492008258 ssDNA binding site [nucleotide binding]; other site 642492008259 tetramer (dimer of dimers) interface [polypeptide binding]; other site 642492008260 fructokinase; Reviewed; Region: PRK09557 642492008261 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 642492008262 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 642492008263 NodB motif; other site 642492008264 active site 642492008265 catalytic site [active] 642492008266 metal binding site [ion binding]; metal-binding site 642492008267 UV-endonuclease UvdE; Region: UvdE; cl10036 642492008268 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 642492008269 NlpC/P60 family; Region: NLPC_P60; pfam00877 642492008270 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 642492008271 Bacterial SH3 domain; Region: SH3_4; pfam06347 642492008272 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 642492008273 NlpC/P60 family; Region: NLPC_P60; pfam00877 642492008274 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 642492008275 active site 642492008276 catalytic residues [active] 642492008277 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 642492008278 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492008279 DNA binding site [nucleotide binding] 642492008280 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 642492008281 putative dimerization interface [polypeptide binding]; other site 642492008282 putative ligand binding site [chemical binding]; other site 642492008283 galactokinase; Provisional; Region: PRK05322 642492008284 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 642492008285 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 642492008286 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 642492008287 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 642492008288 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 642492008289 NAD binding site [chemical binding]; other site 642492008290 homodimer interface [polypeptide binding]; other site 642492008291 active site 642492008292 substrate binding site [chemical binding]; other site 642492008293 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 642492008294 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 642492008295 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 642492008296 Bacitracin resistance protein BacA; Region: BacA; pfam02673 642492008297 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 642492008298 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492008299 Ca binding site [ion binding]; other site 642492008300 active site 642492008301 catalytic site [active] 642492008302 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492008303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492008304 dimer interface [polypeptide binding]; other site 642492008305 conserved gate region; other site 642492008306 putative PBP binding loops; other site 642492008307 ABC-ATPase subunit interface; other site 642492008308 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 642492008309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492008310 dimer interface [polypeptide binding]; other site 642492008311 conserved gate region; other site 642492008312 putative PBP binding loops; other site 642492008313 ABC-ATPase subunit interface; other site 642492008314 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492008315 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492008316 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492008317 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492008318 dimer interface [polypeptide binding]; other site 642492008319 putative CheW interface [polypeptide binding]; other site 642492008320 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 642492008321 histidinol-phosphatase; Reviewed; Region: PRK08123 642492008322 active site 642492008323 dimer interface [polypeptide binding]; other site 642492008324 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 642492008325 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492008326 active site 642492008327 catalytic site [active] 642492008328 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 642492008329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492008330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492008331 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 642492008332 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 642492008333 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 642492008334 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 642492008335 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 642492008336 regulatory protein interface [polypeptide binding]; other site 642492008337 active site 642492008338 regulatory phosphorylation site [posttranslational modification]; other site 642492008339 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 642492008340 Rubredoxin; Region: Rubredoxin; pfam00301 642492008341 iron binding site [ion binding]; other site 642492008342 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 642492008343 Rubrerythrin [Energy production and conversion]; Region: COG1592 642492008344 diiron binding motif [ion binding]; other site 642492008345 inner membrane transporter YjeM; Provisional; Region: PRK15238 642492008346 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 642492008347 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 642492008348 putative catalytic cysteine [active] 642492008349 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 642492008350 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 642492008351 nucleotide binding pocket [chemical binding]; other site 642492008352 K-X-D-G motif; other site 642492008353 catalytic site [active] 642492008354 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 642492008355 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 642492008356 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 642492008357 Dimer interface [polypeptide binding]; other site 642492008358 BRCT sequence motif; other site 642492008359 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 642492008360 Part of AAA domain; Region: AAA_19; pfam13245 642492008361 Family description; Region: UvrD_C_2; pfam13538 642492008362 Trp repressor protein; Region: Trp_repressor; cl17266 642492008363 putative hydrolase; Validated; Region: PRK09248 642492008364 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 642492008365 active site 642492008366 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492008367 Uncharacterized conserved protein [Function unknown]; Region: COG1284 642492008368 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 642492008369 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 642492008370 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 642492008371 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 642492008372 active site 642492008373 HIGH motif; other site 642492008374 dimer interface [polypeptide binding]; other site 642492008375 KMSKS motif; other site 642492008376 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492008377 S-ribosylhomocysteinase; Provisional; Region: PRK02260 642492008378 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 642492008379 HTH-like domain; Region: HTH_21; pfam13276 642492008380 Integrase core domain; Region: rve; pfam00665 642492008381 Integrase core domain; Region: rve_2; pfam13333 642492008382 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492008383 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492008384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492008385 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492008386 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492008387 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 642492008388 hypothetical protein; Provisional; Region: PRK06851 642492008389 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 642492008390 Walker A motif; other site 642492008391 ATP binding site [chemical binding]; other site 642492008392 Walker B motif; other site 642492008393 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 642492008394 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 642492008395 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492008396 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 642492008397 homotrimer interaction site [polypeptide binding]; other site 642492008398 zinc binding site [ion binding]; other site 642492008399 CDP-binding sites; other site 642492008400 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 642492008401 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492008402 active site 642492008403 motif I; other site 642492008404 motif II; other site 642492008405 Putative motility protein; Region: YjfB_motility; pfam14070 642492008406 Protein of unknown function DUF45; Region: DUF45; cl00636 642492008407 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 642492008408 metal binding site [ion binding]; metal-binding site 642492008409 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 642492008410 nudix motif; other site 642492008411 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 642492008412 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 642492008413 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 642492008414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 642492008415 DNA repair protein RadA; Provisional; Region: PRK11823 642492008416 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 642492008417 Walker A motif; other site 642492008418 ATP binding site [chemical binding]; other site 642492008419 Walker B motif; other site 642492008420 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 642492008421 Clp amino terminal domain; Region: Clp_N; pfam02861 642492008422 Clp amino terminal domain; Region: Clp_N; pfam02861 642492008423 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 642492008424 Walker A motif; other site 642492008425 ATP binding site [chemical binding]; other site 642492008426 Walker B motif; other site 642492008427 arginine finger; other site 642492008428 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 642492008429 Walker A motif; other site 642492008430 ATP binding site [chemical binding]; other site 642492008431 Walker B motif; other site 642492008432 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 642492008433 Predicted permeases [General function prediction only]; Region: COG0679 642492008434 PemK-like protein; Region: PemK; pfam02452 642492008435 alanine racemase; Reviewed; Region: alr; PRK00053 642492008436 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 642492008437 active site 642492008438 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 642492008439 dimer interface [polypeptide binding]; other site 642492008440 substrate binding site [chemical binding]; other site 642492008441 catalytic residues [active] 642492008442 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 642492008443 FOG: CBS domain [General function prediction only]; Region: COG0517 642492008444 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 642492008445 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 642492008446 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 642492008447 putative substrate binding site [chemical binding]; other site 642492008448 putative ATP binding site [chemical binding]; other site 642492008449 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 642492008450 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492008451 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 642492008452 substrate binding site [chemical binding]; other site 642492008453 ATP binding site [chemical binding]; other site 642492008454 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 642492008455 AAA domain; Region: AAA_30; pfam13604 642492008456 Family description; Region: UvrD_C_2; pfam13538 642492008457 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 642492008458 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492008459 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492008460 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 642492008461 Fe-S cluster binding site [ion binding]; other site 642492008462 active site 642492008463 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 642492008464 B12 binding site [chemical binding]; other site 642492008465 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 642492008466 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 642492008467 FeS/SAM binding site; other site 642492008468 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 642492008469 thymidylate kinase; Validated; Region: tmk; PRK00698 642492008470 TMP-binding site; other site 642492008471 ATP-binding site [chemical binding]; other site 642492008472 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 642492008473 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 642492008474 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 642492008475 CoA binding domain; Region: CoA_binding; pfam02629 642492008476 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 642492008477 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492008478 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492008479 ABC transporter; Region: ABC_tran_2; pfam12848 642492008480 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492008481 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 642492008482 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 642492008483 FeS/SAM binding site; other site 642492008484 Predicted transcriptional regulator [Transcription]; Region: COG2378 642492008485 HTH domain; Region: HTH_11; pfam08279 642492008486 WYL domain; Region: WYL; pfam13280 642492008487 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 642492008488 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 642492008489 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 642492008490 multifunctional aminopeptidase A; Provisional; Region: PRK00913 642492008491 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 642492008492 interface (dimer of trimers) [polypeptide binding]; other site 642492008493 Substrate-binding/catalytic site; other site 642492008494 Zn-binding sites [ion binding]; other site 642492008495 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 642492008496 Phage Tail Collar Domain; Region: Collar; pfam07484 642492008497 Cache domain; Region: Cache_1; pfam02743 642492008498 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492008499 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492008500 dimer interface [polypeptide binding]; other site 642492008501 putative CheW interface [polypeptide binding]; other site 642492008502 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 642492008503 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 642492008504 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 642492008505 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 642492008506 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 642492008507 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 642492008508 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 642492008509 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 642492008510 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 642492008511 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 642492008512 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 642492008513 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 642492008514 carboxyltransferase (CT) interaction site; other site 642492008515 biotinylation site [posttranslational modification]; other site 642492008516 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 642492008517 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 642492008518 dimer interface [polypeptide binding]; other site 642492008519 active site 642492008520 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 642492008521 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 642492008522 NAD(P) binding site [chemical binding]; other site 642492008523 homotetramer interface [polypeptide binding]; other site 642492008524 homodimer interface [polypeptide binding]; other site 642492008525 active site 642492008526 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 642492008527 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 642492008528 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 642492008529 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 642492008530 FMN binding site [chemical binding]; other site 642492008531 substrate binding site [chemical binding]; other site 642492008532 putative catalytic residue [active] 642492008533 acyl carrier protein; Provisional; Region: acpP; PRK00982 642492008534 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 642492008535 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 642492008536 dimer interface [polypeptide binding]; other site 642492008537 active site 642492008538 CoA binding pocket [chemical binding]; other site 642492008539 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492008540 MarR family; Region: MarR; pfam01047 642492008541 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 642492008542 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 642492008543 FMN binding site [chemical binding]; other site 642492008544 substrate binding site [chemical binding]; other site 642492008545 putative catalytic residue [active] 642492008546 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 642492008547 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 642492008548 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 642492008549 FeS/SAM binding site; other site 642492008550 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 642492008551 Isochorismatase family; Region: Isochorismatase; pfam00857 642492008552 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 642492008553 catalytic triad [active] 642492008554 conserved cis-peptide bond; other site 642492008555 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492008556 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 642492008557 active site 642492008558 phosphorylation site [posttranslational modification] 642492008559 intermolecular recognition site; other site 642492008560 dimerization interface [polypeptide binding]; other site 642492008561 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 642492008562 DNA binding site [nucleotide binding] 642492008563 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 642492008564 dimer interface [polypeptide binding]; other site 642492008565 phosphorylation site [posttranslational modification] 642492008566 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 642492008567 ATP binding site [chemical binding]; other site 642492008568 Mg2+ binding site [ion binding]; other site 642492008569 G-X-G motif; other site 642492008570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492008571 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 642492008572 dimer interface [polypeptide binding]; other site 642492008573 phosphorylation site [posttranslational modification] 642492008574 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 642492008575 ATP binding site [chemical binding]; other site 642492008576 Mg2+ binding site [ion binding]; other site 642492008577 G-X-G motif; other site 642492008578 DHHW protein; Region: DHHW; pfam14286 642492008579 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 642492008580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492008581 Coenzyme A binding pocket [chemical binding]; other site 642492008582 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 642492008583 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492008584 LytTr DNA-binding domain; Region: LytTR; pfam04397 642492008585 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492008586 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492008587 Walker A/P-loop; other site 642492008588 ATP binding site [chemical binding]; other site 642492008589 Q-loop/lid; other site 642492008590 ABC transporter signature motif; other site 642492008591 Walker B; other site 642492008592 D-loop; other site 642492008593 H-loop/switch region; other site 642492008594 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 642492008595 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 642492008596 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 642492008597 putative oligomer interface [polypeptide binding]; other site 642492008598 putative active site [active] 642492008599 metal binding site [ion binding]; metal-binding site 642492008600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492008601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008602 Coenzyme A binding pocket [chemical binding]; other site 642492008603 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 642492008604 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 642492008605 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492008606 CAAX protease self-immunity; Region: Abi; pfam02517 642492008607 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 642492008608 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 642492008609 putative substrate translocation pore; other site 642492008610 Major Facilitator Superfamily; Region: MFS_1; pfam07690 642492008611 Sulfatase; Region: Sulfatase; cl17466 642492008612 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492008613 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492008614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492008615 Walker A/P-loop; other site 642492008616 ATP binding site [chemical binding]; other site 642492008617 Q-loop/lid; other site 642492008618 ABC transporter signature motif; other site 642492008619 Walker B; other site 642492008620 D-loop; other site 642492008621 H-loop/switch region; other site 642492008622 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492008623 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492008624 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 642492008625 Walker A/P-loop; other site 642492008626 ATP binding site [chemical binding]; other site 642492008627 Q-loop/lid; other site 642492008628 ABC transporter signature motif; other site 642492008629 Walker B; other site 642492008630 D-loop; other site 642492008631 H-loop/switch region; other site 642492008632 Protein of unknown function (DUF419); Region: DUF419; cl15265 642492008633 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 642492008634 putative FMN binding site [chemical binding]; other site 642492008635 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492008636 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008637 Coenzyme A binding pocket [chemical binding]; other site 642492008638 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 642492008639 putative dimer interface [polypeptide binding]; other site 642492008640 catalytic triad [active] 642492008641 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 642492008642 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 642492008643 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492008644 Zn2+ binding site [ion binding]; other site 642492008645 Mg2+ binding site [ion binding]; other site 642492008646 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 642492008647 Catalytic domain of Protein Kinases; Region: PKc; cd00180 642492008648 active site 642492008649 ATP binding site [chemical binding]; other site 642492008650 substrate binding site [chemical binding]; other site 642492008651 activation loop (A-loop); other site 642492008652 Predicted integral membrane protein [Function unknown]; Region: COG5542 642492008653 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 642492008654 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 642492008655 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492008656 catalytic residue [active] 642492008657 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492008658 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 642492008659 dimerization interface [polypeptide binding]; other site 642492008660 hypothetical protein; Validated; Region: PRK02101 642492008661 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 642492008662 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 642492008663 catalytic triad [active] 642492008664 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 642492008665 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 642492008666 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492008667 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 642492008668 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 642492008669 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 642492008670 VanW like protein; Region: VanW; pfam04294 642492008671 G5 domain; Region: G5; pfam07501 642492008672 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 642492008673 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 642492008674 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 642492008675 putative metal binding residues [ion binding]; other site 642492008676 signature motif; other site 642492008677 dimer interface [polypeptide binding]; other site 642492008678 active site 642492008679 polyP binding site; other site 642492008680 substrate binding site [chemical binding]; other site 642492008681 acceptor-phosphate pocket; other site 642492008682 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 642492008683 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 642492008684 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492008685 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 642492008686 DNA-binding site [nucleotide binding]; DNA binding site 642492008687 RNA-binding motif; other site 642492008688 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 642492008689 active site 642492008690 catalytic triad [active] 642492008691 oxyanion hole [active] 642492008692 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 642492008693 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 642492008694 motif II; other site 642492008695 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 642492008696 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 642492008697 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 642492008698 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 642492008699 FeS/SAM binding site; other site 642492008700 Predicted membrane protein [Function unknown]; Region: COG1971 642492008701 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 642492008702 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492008703 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492008704 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 642492008705 Uncharacterized conserved protein [Function unknown]; Region: COG2013 642492008706 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 642492008707 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 642492008708 dimer interface [polypeptide binding]; other site 642492008709 putative radical transfer pathway; other site 642492008710 diiron center [ion binding]; other site 642492008711 tyrosyl radical; other site 642492008712 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 642492008713 ATP cone domain; Region: ATP-cone; pfam03477 642492008714 Class I ribonucleotide reductase; Region: RNR_I; cd01679 642492008715 active site 642492008716 dimer interface [polypeptide binding]; other site 642492008717 catalytic residues [active] 642492008718 effector binding site; other site 642492008719 R2 peptide binding site; other site 642492008720 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 642492008721 catalytic motif [active] 642492008722 Zn binding site [ion binding]; other site 642492008723 glycogen synthase; Provisional; Region: glgA; PRK00654 642492008724 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 642492008725 ADP-binding pocket [chemical binding]; other site 642492008726 homodimer interface [polypeptide binding]; other site 642492008727 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492008728 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492008729 Walker A/P-loop; other site 642492008730 ATP binding site [chemical binding]; other site 642492008731 Q-loop/lid; other site 642492008732 ABC transporter signature motif; other site 642492008733 Walker B; other site 642492008734 D-loop; other site 642492008735 H-loop/switch region; other site 642492008736 FtsX-like permease family; Region: FtsX; pfam02687 642492008737 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 642492008738 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 642492008739 active site 642492008740 phosphorylation site [posttranslational modification] 642492008741 intermolecular recognition site; other site 642492008742 dimerization interface [polypeptide binding]; other site 642492008743 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 642492008744 DNA binding residues [nucleotide binding] 642492008745 dimerization interface [polypeptide binding]; other site 642492008746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 642492008747 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 642492008748 Histidine kinase; Region: HisKA_3; pfam07730 642492008749 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 642492008750 ATP binding site [chemical binding]; other site 642492008751 Mg2+ binding site [ion binding]; other site 642492008752 G-X-G motif; other site 642492008753 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 642492008754 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 642492008755 HlyD family secretion protein; Region: HlyD_3; pfam13437 642492008756 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492008757 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492008758 Walker A/P-loop; other site 642492008759 ATP binding site [chemical binding]; other site 642492008760 Q-loop/lid; other site 642492008761 ABC transporter signature motif; other site 642492008762 Walker B; other site 642492008763 D-loop; other site 642492008764 H-loop/switch region; other site 642492008765 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492008766 FtsX-like permease family; Region: FtsX; pfam02687 642492008767 FtsX-like permease family; Region: FtsX; pfam02687 642492008768 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 642492008769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492008770 metal binding site [ion binding]; metal-binding site 642492008771 active site 642492008772 I-site; other site 642492008773 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 642492008774 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 642492008775 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 642492008776 dimer interface [polypeptide binding]; other site 642492008777 substrate binding site [chemical binding]; other site 642492008778 ATP binding site [chemical binding]; other site 642492008779 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 642492008780 thiamine phosphate binding site [chemical binding]; other site 642492008781 active site 642492008782 pyrophosphate binding site [ion binding]; other site 642492008783 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 642492008784 substrate binding site [chemical binding]; other site 642492008785 multimerization interface [polypeptide binding]; other site 642492008786 ATP binding site [chemical binding]; other site 642492008787 Beta propeller domain; Region: Beta_propel; pfam09826 642492008788 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 642492008789 beta-galactosidase; Region: BGL; TIGR03356 642492008790 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492008791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492008792 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 642492008793 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 642492008794 S-layer homology domain; Region: SLH; pfam00395 642492008795 S-layer homology domain; Region: SLH; pfam00395 642492008796 S-layer homology domain; Region: SLH; pfam00395 642492008797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 642492008798 active site 642492008799 phosphorylation site [posttranslational modification] 642492008800 intermolecular recognition site; other site 642492008801 dimerization interface [polypeptide binding]; other site 642492008802 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492008803 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 642492008804 active site 642492008805 phosphorylation site [posttranslational modification] 642492008806 intermolecular recognition site; other site 642492008807 dimerization interface [polypeptide binding]; other site 642492008808 LytTr DNA-binding domain; Region: LytTR; smart00850 642492008809 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492008810 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 642492008811 ATP binding site [chemical binding]; other site 642492008812 Mg2+ binding site [ion binding]; other site 642492008813 G-X-G motif; other site 642492008814 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 642492008815 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 642492008816 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 642492008817 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 642492008818 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 642492008819 putative catalytic residues [active] 642492008820 catalytic nucleophile [active] 642492008821 Recombinase; Region: Recombinase; pfam07508 642492008822 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 642492008823 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 642492008824 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 642492008825 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 642492008826 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 642492008827 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 642492008828 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 642492008829 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 642492008830 catalytic residues [active] 642492008831 Predicted transcriptional regulators [Transcription]; Region: COG1733 642492008832 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 642492008833 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 642492008834 peptidase T; Region: peptidase-T; TIGR01882 642492008835 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 642492008836 metal binding site [ion binding]; metal-binding site 642492008837 dimer interface [polypeptide binding]; other site 642492008838 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 642492008839 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 642492008840 Part of AAA domain; Region: AAA_19; pfam13245 642492008841 Family description; Region: UvrD_C_2; pfam13538 642492008842 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 642492008843 active site 642492008844 catalytic triad [active] 642492008845 oxyanion hole [active] 642492008846 Rubrerythrin [Energy production and conversion]; Region: COG1592 642492008847 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 642492008848 binuclear metal center [ion binding]; other site 642492008849 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 642492008850 iron binding site [ion binding]; other site 642492008851 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492008852 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 642492008853 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492008854 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492008855 DNA binding site [nucleotide binding] 642492008856 domain linker motif; other site 642492008857 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 642492008858 ligand binding site [chemical binding]; other site 642492008859 dimerization interface [polypeptide binding]; other site 642492008860 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 642492008861 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 642492008862 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492008863 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 642492008864 substrate binding site [chemical binding]; other site 642492008865 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 642492008866 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 642492008867 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 642492008868 DNA binding residues [nucleotide binding] 642492008869 dimerization interface [polypeptide binding]; other site 642492008870 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 642492008871 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 642492008872 active site 642492008873 phosphorylation site [posttranslational modification] 642492008874 intermolecular recognition site; other site 642492008875 dimerization interface [polypeptide binding]; other site 642492008876 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 642492008877 dimerization interface [polypeptide binding]; other site 642492008878 DNA binding residues [nucleotide binding] 642492008879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 642492008880 Histidine kinase; Region: HisKA_3; pfam07730 642492008881 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 642492008882 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 642492008883 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 642492008884 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492008885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492008886 Walker A/P-loop; other site 642492008887 ATP binding site [chemical binding]; other site 642492008888 Q-loop/lid; other site 642492008889 ABC transporter signature motif; other site 642492008890 Walker B; other site 642492008891 D-loop; other site 642492008892 H-loop/switch region; other site 642492008893 Erythromycin esterase; Region: Erythro_esteras; pfam05139 642492008894 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 642492008895 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 642492008896 DNA binding residues [nucleotide binding] 642492008897 putative dimer interface [polypeptide binding]; other site 642492008898 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 642492008899 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 642492008900 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 642492008901 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 642492008902 active site 642492008903 metal binding site [ion binding]; metal-binding site 642492008904 homotetramer interface [polypeptide binding]; other site 642492008905 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492008906 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 642492008907 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492008908 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 642492008909 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 642492008910 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 642492008911 substrate binding pocket [chemical binding]; other site 642492008912 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 642492008913 putative deacylase active site [active] 642492008914 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 642492008915 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 642492008916 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 642492008917 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492008918 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 642492008919 putative substrate translocation pore; other site 642492008920 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492008921 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 642492008922 Walker A/P-loop; other site 642492008923 ATP binding site [chemical binding]; other site 642492008924 Q-loop/lid; other site 642492008925 ABC transporter signature motif; other site 642492008926 Walker B; other site 642492008927 D-loop; other site 642492008928 H-loop/switch region; other site 642492008929 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 642492008930 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 642492008931 ABC-ATPase subunit interface; other site 642492008932 dimer interface [polypeptide binding]; other site 642492008933 putative PBP binding regions; other site 642492008934 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 642492008935 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 642492008936 ABC-ATPase subunit interface; other site 642492008937 dimer interface [polypeptide binding]; other site 642492008938 putative PBP binding regions; other site 642492008939 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 642492008940 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 642492008941 intersubunit interface [polypeptide binding]; other site 642492008942 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 642492008943 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492008944 active site 642492008945 motif I; other site 642492008946 motif II; other site 642492008947 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 642492008948 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 642492008949 Rubredoxin; Region: Rubredoxin; pfam00301 642492008950 iron binding site [ion binding]; other site 642492008951 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492008952 active site 642492008953 xanthine permease; Region: pbuX; TIGR03173 642492008954 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 642492008955 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 642492008956 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 642492008957 dimer interface [polypeptide binding]; other site 642492008958 active site 642492008959 metal binding site [ion binding]; metal-binding site 642492008960 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492008961 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 642492008962 active site 642492008963 phosphorylation site [posttranslational modification] 642492008964 intermolecular recognition site; other site 642492008965 dimerization interface [polypeptide binding]; other site 642492008966 LytTr DNA-binding domain; Region: LytTR; smart00850 642492008967 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 642492008968 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 642492008969 Histidine kinase; Region: His_kinase; pfam06580 642492008970 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 642492008971 ATP binding site [chemical binding]; other site 642492008972 Mg2+ binding site [ion binding]; other site 642492008973 G-X-G motif; other site 642492008974 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492008975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492008976 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 642492008977 dimerization interface [polypeptide binding]; other site 642492008978 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 642492008979 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 642492008980 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 642492008981 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008982 Coenzyme A binding pocket [chemical binding]; other site 642492008983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492008984 Coenzyme A binding pocket [chemical binding]; other site 642492008985 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 642492008986 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 642492008987 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 642492008988 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 642492008989 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 642492008990 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 642492008991 putative NADH binding site [chemical binding]; other site 642492008992 putative active site [active] 642492008993 nudix motif; other site 642492008994 putative metal binding site [ion binding]; other site 642492008995 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 642492008996 Predicted membrane protein [Function unknown]; Region: COG2510 642492008997 Predicted membrane protein [Function unknown]; Region: COG2510 642492008998 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 642492008999 N-terminal domain of chitobiose phosphorylase (ChBP) and similar proteins; Region: GH94N_ChBP_like; cd11755 642492009000 catalytic domain interface [polypeptide binding]; other site 642492009001 putative homodimer interface [polypeptide binding]; other site 642492009002 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 642492009003 Methyltransferase domain; Region: Methyltransf_31; pfam13847 642492009004 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 642492009005 S-adenosylmethionine binding site [chemical binding]; other site 642492009006 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 642492009007 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 642492009008 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 642492009009 TrkA-C domain; Region: TrkA_C; pfam02080 642492009010 TrkA-C domain; Region: TrkA_C; pfam02080 642492009011 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 642492009012 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 642492009013 active site 642492009014 metal binding site [ion binding]; metal-binding site 642492009015 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 642492009016 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 642492009017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009018 dimer interface [polypeptide binding]; other site 642492009019 conserved gate region; other site 642492009020 ABC-ATPase subunit interface; other site 642492009021 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 642492009022 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009023 dimer interface [polypeptide binding]; other site 642492009024 conserved gate region; other site 642492009025 putative PBP binding loops; other site 642492009026 ABC-ATPase subunit interface; other site 642492009027 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 642492009028 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 642492009029 Walker A/P-loop; other site 642492009030 ATP binding site [chemical binding]; other site 642492009031 Q-loop/lid; other site 642492009032 ABC transporter signature motif; other site 642492009033 Walker B; other site 642492009034 D-loop; other site 642492009035 H-loop/switch region; other site 642492009036 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 642492009037 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 642492009038 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492009039 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492009040 DNA binding site [nucleotide binding] 642492009041 domain linker motif; other site 642492009042 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 642492009043 AAA domain; Region: AAA_17; pfam13207 642492009044 AAA domain; Region: AAA_18; pfam13238 642492009045 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492009046 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492009047 Coenzyme A binding pocket [chemical binding]; other site 642492009048 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492009049 Coenzyme A binding pocket [chemical binding]; other site 642492009050 Entericidin EcnA/B family; Region: Entericidin; cl02322 642492009051 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 642492009052 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 642492009053 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 642492009054 ABC-ATPase subunit interface; other site 642492009055 dimer interface [polypeptide binding]; other site 642492009056 putative PBP binding regions; other site 642492009057 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 642492009058 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 642492009059 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 642492009060 intersubunit interface [polypeptide binding]; other site 642492009061 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 642492009062 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 642492009063 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 642492009064 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 642492009065 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 642492009066 G1 box; other site 642492009067 GTP/Mg2+ binding site [chemical binding]; other site 642492009068 Switch I region; other site 642492009069 G2 box; other site 642492009070 G3 box; other site 642492009071 Switch II region; other site 642492009072 G4 box; other site 642492009073 G5 box; other site 642492009074 Nucleoside recognition; Region: Gate; pfam07670 642492009075 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 642492009076 Nucleoside recognition; Region: Gate; pfam07670 642492009077 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 642492009078 FeoA domain; Region: FeoA; pfam04023 642492009079 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 642492009080 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 642492009081 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492009082 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 642492009083 Walker A/P-loop; other site 642492009084 ATP binding site [chemical binding]; other site 642492009085 Q-loop/lid; other site 642492009086 ABC transporter signature motif; other site 642492009087 Walker B; other site 642492009088 D-loop; other site 642492009089 H-loop/switch region; other site 642492009090 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492009091 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 642492009092 dimer interface [polypeptide binding]; other site 642492009093 phosphorylation site [posttranslational modification] 642492009094 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 642492009095 ATP binding site [chemical binding]; other site 642492009096 Mg2+ binding site [ion binding]; other site 642492009097 G-X-G motif; other site 642492009098 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492009099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492009100 Walker A/P-loop; other site 642492009101 ATP binding site [chemical binding]; other site 642492009102 Q-loop/lid; other site 642492009103 ABC transporter signature motif; other site 642492009104 Walker B; other site 642492009105 D-loop; other site 642492009106 H-loop/switch region; other site 642492009107 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492009108 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 642492009109 active site 642492009110 phosphorylation site [posttranslational modification] 642492009111 intermolecular recognition site; other site 642492009112 dimerization interface [polypeptide binding]; other site 642492009113 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 642492009114 DNA binding site [nucleotide binding] 642492009115 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 642492009116 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 642492009117 catalytic residue [active] 642492009118 putative FPP diphosphate binding site; other site 642492009119 putative FPP binding hydrophobic cleft; other site 642492009120 dimer interface [polypeptide binding]; other site 642492009121 putative IPP diphosphate binding site; other site 642492009122 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 642492009123 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492009124 EDD domain protein, DegV family; Region: DegV; TIGR00762 642492009125 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 642492009126 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 642492009127 Amidohydrolase; Region: Amidohydro_4; pfam13147 642492009128 active site 642492009129 dimer interface [polypeptide binding]; other site 642492009130 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 642492009131 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 642492009132 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492009133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 642492009134 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 642492009135 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 642492009136 Rhomboid family; Region: Rhomboid; pfam01694 642492009137 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 642492009138 binding surface 642492009139 TPR repeat; Region: TPR_11; pfam13414 642492009140 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 642492009141 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 642492009142 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492009143 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492009144 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 642492009145 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 642492009146 trimerization site [polypeptide binding]; other site 642492009147 active site 642492009148 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 642492009149 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 642492009150 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 642492009151 catalytic residue [active] 642492009152 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 642492009153 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 642492009154 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 642492009155 FeS assembly protein SufB; Region: sufB; TIGR01980 642492009156 FeS assembly ATPase SufC; Region: sufC; TIGR01978 642492009157 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 642492009158 Walker A/P-loop; other site 642492009159 ATP binding site [chemical binding]; other site 642492009160 Q-loop/lid; other site 642492009161 ABC transporter signature motif; other site 642492009162 Walker B; other site 642492009163 D-loop; other site 642492009164 H-loop/switch region; other site 642492009165 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 642492009166 classical (c) SDRs; Region: SDR_c; cd05233 642492009167 NAD(P) binding site [chemical binding]; other site 642492009168 active site 642492009169 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492009170 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492009171 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492009172 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492009173 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492009174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492009175 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 642492009176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492009177 Coenzyme A binding pocket [chemical binding]; other site 642492009178 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 642492009179 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492009180 MarR family; Region: MarR_2; cl17246 642492009181 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 642492009182 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 642492009183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492009184 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 642492009185 dimer interface [polypeptide binding]; other site 642492009186 phosphorylation site [posttranslational modification] 642492009187 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 642492009188 ATP binding site [chemical binding]; other site 642492009189 Mg2+ binding site [ion binding]; other site 642492009190 G-X-G motif; other site 642492009191 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492009192 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 642492009193 active site 642492009194 phosphorylation site [posttranslational modification] 642492009195 intermolecular recognition site; other site 642492009196 dimerization interface [polypeptide binding]; other site 642492009197 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 642492009198 DNA binding site [nucleotide binding] 642492009199 MraW methylase family; Region: Methyltransf_5; cl17771 642492009200 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 642492009201 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 642492009202 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 642492009203 Ligand Binding Site [chemical binding]; other site 642492009204 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492009205 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 642492009206 Soluble P-type ATPase [General function prediction only]; Region: COG4087 642492009207 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 642492009208 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 642492009209 putative ATP binding site [chemical binding]; other site 642492009210 putative substrate interface [chemical binding]; other site 642492009211 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 642492009212 ArsC family; Region: ArsC; pfam03960 642492009213 catalytic residue [active] 642492009214 Protein of unknown function DUF89; Region: DUF89; cl15397 642492009215 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 642492009216 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492009217 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009218 dimer interface [polypeptide binding]; other site 642492009219 conserved gate region; other site 642492009220 putative PBP binding loops; other site 642492009221 ABC-ATPase subunit interface; other site 642492009222 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009224 putative PBP binding loops; other site 642492009225 dimer interface [polypeptide binding]; other site 642492009226 ABC-ATPase subunit interface; other site 642492009227 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492009228 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492009229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 642492009230 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 642492009231 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 642492009232 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 642492009233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492009234 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 642492009235 Walker A/P-loop; other site 642492009236 ATP binding site [chemical binding]; other site 642492009237 Q-loop/lid; other site 642492009238 ABC transporter signature motif; other site 642492009239 Walker B; other site 642492009240 D-loop; other site 642492009241 H-loop/switch region; other site 642492009242 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 642492009243 Beta-lactamase; Region: Beta-lactamase; pfam00144 642492009244 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 642492009245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492009246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492009247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492009248 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 642492009249 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492009250 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492009251 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492009252 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 642492009253 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 642492009254 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 642492009255 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 642492009256 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 642492009257 MFS/sugar transport protein; Region: MFS_2; pfam13347 642492009258 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 642492009259 Melibiase; Region: Melibiase; pfam02065 642492009260 GMP synthase; Reviewed; Region: guaA; PRK00074 642492009261 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 642492009262 AMP/PPi binding site [chemical binding]; other site 642492009263 candidate oxyanion hole; other site 642492009264 catalytic triad [active] 642492009265 potential glutamine specificity residues [chemical binding]; other site 642492009266 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 642492009267 ATP Binding subdomain [chemical binding]; other site 642492009268 Ligand Binding sites [chemical binding]; other site 642492009269 Dimerization subdomain; other site 642492009270 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 642492009271 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 642492009272 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 642492009273 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 642492009274 active site 642492009275 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 642492009276 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 642492009277 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 642492009278 ring oligomerisation interface [polypeptide binding]; other site 642492009279 ATP/Mg binding site [chemical binding]; other site 642492009280 stacking interactions; other site 642492009281 hinge regions; other site 642492009282 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 642492009283 oligomerisation interface [polypeptide binding]; other site 642492009284 mobile loop; other site 642492009285 roof hairpin; other site 642492009286 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 642492009287 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 642492009288 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 642492009289 minor groove reading motif; other site 642492009290 helix-hairpin-helix signature motif; other site 642492009291 substrate binding pocket [chemical binding]; other site 642492009292 active site 642492009293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 642492009294 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 642492009295 Transposase; Region: DDE_Tnp_ISL3; pfam01610 642492009296 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 642492009297 substrate binding site; other site 642492009298 dimer interface; other site 642492009299 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 642492009300 VanZ like family; Region: VanZ; cl01971 642492009301 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 642492009302 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 642492009303 putative active site [active] 642492009304 UGMP family protein; Validated; Region: PRK09604 642492009305 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 642492009306 Fumble; Region: Fumble; cl17357 642492009307 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 642492009308 ribonuclease Z; Region: RNase_Z; TIGR02651 642492009309 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 642492009310 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 642492009311 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 642492009312 G1 box; other site 642492009313 GTP/Mg2+ binding site [chemical binding]; other site 642492009314 Switch I region; other site 642492009315 G2 box; other site 642492009316 G3 box; other site 642492009317 Switch II region; other site 642492009318 G4 box; other site 642492009319 G5 box; other site 642492009320 Nucleoside recognition; Region: Gate; pfam07670 642492009321 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 642492009322 Nucleoside recognition; Region: Gate; pfam07670 642492009323 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 642492009324 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 642492009325 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492009326 Walker A/P-loop; other site 642492009327 ATP binding site [chemical binding]; other site 642492009328 Q-loop/lid; other site 642492009329 ABC transporter signature motif; other site 642492009330 Walker B; other site 642492009331 D-loop; other site 642492009332 H-loop/switch region; other site 642492009333 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 642492009334 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 642492009335 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 642492009336 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 642492009337 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492009338 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492009339 S-locus glycoprotein family; Region: S_locus_glycop; pfam00954 642492009340 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 642492009341 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 642492009342 active site 642492009343 substrate binding site [chemical binding]; other site 642492009344 metal binding site [ion binding]; metal-binding site 642492009345 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 642492009346 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 642492009347 nucleotide binding site [chemical binding]; other site 642492009348 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 642492009349 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492009350 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009351 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009352 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492009353 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009354 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492009355 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 642492009356 Interdomain contacts; other site 642492009357 Cytokine receptor motif; other site 642492009358 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 642492009359 aromatic chitin/cellulose binding site residues [chemical binding]; other site 642492009360 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 642492009361 active site 642492009362 catalytic residues [active] 642492009363 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 642492009364 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 642492009365 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492009366 active site 642492009367 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 642492009368 dimerization interface [polypeptide binding]; other site 642492009369 putative active cleft [active] 642492009370 Domain of unknown function (DUF377); Region: DUF377; pfam04041 642492009371 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492009372 active site 642492009373 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492009374 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492009375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492009376 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492009377 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492009378 DNA binding site [nucleotide binding] 642492009379 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 642492009380 Melibiase; Region: Melibiase; pfam02065 642492009381 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 642492009382 Melibiase; Region: Melibiase; pfam02065 642492009383 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 642492009384 active site 642492009385 catalytic triad [active] 642492009386 oxyanion hole [active] 642492009387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 642492009388 YbbR-like protein; Region: YbbR; pfam07949 642492009389 Uncharacterized conserved protein [Function unknown]; Region: COG1624 642492009390 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 642492009391 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 642492009392 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 642492009393 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 642492009394 dimer interface [polypeptide binding]; other site 642492009395 putative anticodon binding site; other site 642492009396 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 642492009397 motif 1; other site 642492009398 active site 642492009399 motif 2; other site 642492009400 motif 3; other site 642492009401 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 642492009402 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 642492009403 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 642492009404 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 642492009405 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 642492009406 FMN binding site [chemical binding]; other site 642492009407 active site 642492009408 catalytic residues [active] 642492009409 substrate binding site [chemical binding]; other site 642492009410 pantothenate kinase; Reviewed; Region: PRK13318 642492009411 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 642492009412 Flavoprotein; Region: Flavoprotein; pfam02441 642492009413 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 642492009414 Predicted membrane protein [Function unknown]; Region: COG4684 642492009415 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 642492009416 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 642492009417 putative Zn2+ binding site [ion binding]; other site 642492009418 putative DNA binding site [nucleotide binding]; other site 642492009419 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 642492009420 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 642492009421 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 642492009422 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 642492009423 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 642492009424 Walker A motif; other site 642492009425 ATP binding site [chemical binding]; other site 642492009426 Walker B motif; other site 642492009427 arginine finger; other site 642492009428 Peptidase family M41; Region: Peptidase_M41; pfam01434 642492009429 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492009430 active site 642492009431 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 642492009432 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 642492009433 Ligand Binding Site [chemical binding]; other site 642492009434 TilS substrate C-terminal domain; Region: TilS_C; smart00977 642492009435 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 642492009436 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 642492009437 Interdomain contacts; other site 642492009438 Cytokine receptor motif; other site 642492009439 Fibronectin type 3 domain; Region: FN3; smart00060 642492009440 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 642492009441 Interdomain contacts; other site 642492009442 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 642492009443 RHS Repeat; Region: RHS_repeat; cl11982 642492009444 RHS Repeat; Region: RHS_repeat; pfam05593 642492009445 RHS Repeat; Region: RHS_repeat; cl11982 642492009446 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 642492009447 RHS Repeat; Region: RHS_repeat; pfam05593 642492009448 RHS Repeat; Region: RHS_repeat; pfam05593 642492009449 RHS Repeat; Region: RHS_repeat; pfam05593 642492009450 RHS Repeat; Region: RHS_repeat; cl11982 642492009451 RHS Repeat; Region: RHS_repeat; pfam05593 642492009452 RHS Repeat; Region: RHS_repeat; pfam05593 642492009453 RHS Repeat; Region: RHS_repeat; pfam05593 642492009454 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 642492009455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492009456 Transposase; Region: HTH_Tnp_1; pfam01527 642492009457 putative transposase OrfB; Reviewed; Region: PHA02517 642492009458 HTH-like domain; Region: HTH_21; pfam13276 642492009459 Integrase core domain; Region: rve; pfam00665 642492009460 Integrase core domain; Region: rve_3; pfam13683 642492009461 RHS Repeat; Region: RHS_repeat; pfam05593 642492009462 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009463 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 642492009464 RHS Repeat; Region: RHS_repeat; pfam05593 642492009465 RHS Repeat; Region: RHS_repeat; pfam05593 642492009466 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 642492009467 RHS Repeat; Region: RHS_repeat; pfam05593 642492009468 RHS Repeat; Region: RHS_repeat; pfam05593 642492009469 RHS Repeat; Region: RHS_repeat; pfam05593 642492009470 RHS Repeat; Region: RHS_repeat; pfam05593 642492009471 RHS Repeat; Region: RHS_repeat; pfam05593 642492009472 RHS Repeat; Region: RHS_repeat; pfam05593 642492009473 RHS Repeat; Region: RHS_repeat; pfam05593 642492009474 RHS Repeat; Region: RHS_repeat; pfam05593 642492009475 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 642492009476 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 642492009477 RHS Repeat; Region: RHS_repeat; pfam05593 642492009478 RHS Repeat; Region: RHS_repeat; pfam05593 642492009479 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 642492009480 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 642492009481 Interdomain contacts; other site 642492009482 Bacterial Ig-like domain; Region: Big_5; pfam13205 642492009483 RHS Repeat; Region: RHS_repeat; cl11982 642492009484 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009485 stage II sporulation protein E; Region: spore_II_E; TIGR02865 642492009486 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 642492009487 Predicted membrane protein [Function unknown]; Region: COG4129 642492009488 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 642492009489 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 642492009490 Domain of unknown function (DUF377); Region: DUF377; pfam04041 642492009491 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 642492009492 active site 642492009493 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492009494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009495 dimer interface [polypeptide binding]; other site 642492009496 conserved gate region; other site 642492009497 putative PBP binding loops; other site 642492009498 ABC-ATPase subunit interface; other site 642492009499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009500 dimer interface [polypeptide binding]; other site 642492009501 conserved gate region; other site 642492009502 putative PBP binding loops; other site 642492009503 ABC-ATPase subunit interface; other site 642492009504 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492009505 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492009506 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 642492009507 DEAD/DEAH box helicase; Region: DEAD; pfam00270 642492009508 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 642492009509 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 642492009510 nucleotide binding region [chemical binding]; other site 642492009511 ATP-binding site [chemical binding]; other site 642492009512 SEC-C motif; Region: SEC-C; pfam02810 642492009513 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 642492009514 30S subunit binding site; other site 642492009515 QueT transporter; Region: QueT; pfam06177 642492009516 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 642492009517 EamA-like transporter family; Region: EamA; pfam00892 642492009518 EamA-like transporter family; Region: EamA; pfam00892 642492009519 HAMP domain; Region: HAMP; pfam00672 642492009520 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492009521 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492009522 dimer interface [polypeptide binding]; other site 642492009523 putative CheW interface [polypeptide binding]; other site 642492009524 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492009525 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 642492009526 Cellulose binding domain; Region: CBM_3; cl03026 642492009527 cobalamin synthase; Reviewed; Region: cobS; PRK00235 642492009528 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 642492009529 homotrimer interface [polypeptide binding]; other site 642492009530 Walker A motif; other site 642492009531 GTP binding site [chemical binding]; other site 642492009532 Walker B motif; other site 642492009533 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 642492009534 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 642492009535 putative dimer interface [polypeptide binding]; other site 642492009536 active site pocket [active] 642492009537 putative cataytic base [active] 642492009538 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 642492009539 active site clefts [active] 642492009540 zinc binding site [ion binding]; other site 642492009541 dimer interface [polypeptide binding]; other site 642492009542 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009543 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 642492009544 active site 642492009545 Cysteine-rich small domain; Region: zf-like; cl00946 642492009546 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 642492009547 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 642492009548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492009549 homodimer interface [polypeptide binding]; other site 642492009550 catalytic residue [active] 642492009551 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 642492009552 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 642492009553 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 642492009554 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 642492009555 catalytic triad [active] 642492009556 cobyric acid synthase; Provisional; Region: PRK00784 642492009557 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 642492009558 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 642492009559 catalytic triad [active] 642492009560 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 642492009561 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492009562 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492009563 Walker A/P-loop; other site 642492009564 ATP binding site [chemical binding]; other site 642492009565 Q-loop/lid; other site 642492009566 ABC transporter signature motif; other site 642492009567 Walker B; other site 642492009568 D-loop; other site 642492009569 H-loop/switch region; other site 642492009570 Predicted transcriptional regulators [Transcription]; Region: COG1725 642492009571 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492009572 DNA-binding site [nucleotide binding]; DNA binding site 642492009573 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 642492009574 putative active site [active] 642492009575 Cache domain; Region: Cache_1; pfam02743 642492009576 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492009577 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 642492009578 dimerization interface [polypeptide binding]; other site 642492009579 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 642492009580 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 642492009581 PhnA protein; Region: PhnA; pfam03831 642492009582 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 642492009583 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 642492009584 aspartate aminotransferase; Provisional; Region: PRK06836 642492009585 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 642492009586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492009587 homodimer interface [polypeptide binding]; other site 642492009588 catalytic residue [active] 642492009589 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 642492009590 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492009591 active site 642492009592 metal binding site [ion binding]; metal-binding site 642492009593 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 642492009594 active site residue [active] 642492009595 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 642492009596 active site residue [active] 642492009597 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009598 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492009599 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 642492009600 Walker A/P-loop; other site 642492009601 ATP binding site [chemical binding]; other site 642492009602 Q-loop/lid; other site 642492009603 ABC transporter signature motif; other site 642492009604 Walker B; other site 642492009605 D-loop; other site 642492009606 H-loop/switch region; other site 642492009607 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009608 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492009609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492009610 Walker A/P-loop; other site 642492009611 ATP binding site [chemical binding]; other site 642492009612 Q-loop/lid; other site 642492009613 ABC transporter signature motif; other site 642492009614 Walker B; other site 642492009615 D-loop; other site 642492009616 H-loop/switch region; other site 642492009617 Nitroreductase family; Region: Nitroreductase; pfam00881 642492009618 FMN binding site [chemical binding]; other site 642492009619 dimer interface [polypeptide binding]; other site 642492009620 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492009621 MarR family; Region: MarR_2; pfam12802 642492009622 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009623 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492009624 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 642492009625 Walker A/P-loop; other site 642492009626 ATP binding site [chemical binding]; other site 642492009627 Q-loop/lid; other site 642492009628 ABC transporter signature motif; other site 642492009629 Walker B; other site 642492009630 D-loop; other site 642492009631 H-loop/switch region; other site 642492009632 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492009633 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492009634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492009635 Walker A/P-loop; other site 642492009636 ATP binding site [chemical binding]; other site 642492009637 Q-loop/lid; other site 642492009638 ABC transporter signature motif; other site 642492009639 Walker B; other site 642492009640 D-loop; other site 642492009641 H-loop/switch region; other site 642492009642 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492009643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492009644 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 642492009645 dimerization interface [polypeptide binding]; other site 642492009646 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492009647 MarR family; Region: MarR_2; pfam12802 642492009648 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492009649 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 642492009650 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 642492009651 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 642492009652 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 642492009653 Ca binding site [ion binding]; other site 642492009654 active site 642492009655 catalytic site [active] 642492009656 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 642492009657 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 642492009658 active site turn [active] 642492009659 phosphorylation site [posttranslational modification] 642492009660 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 642492009661 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 642492009662 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492009663 DNA-binding site [nucleotide binding]; DNA binding site 642492009664 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 642492009665 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 642492009666 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 642492009667 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 642492009668 Cation efflux family; Region: Cation_efflux; pfam01545 642492009669 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 642492009670 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492009671 Zn2+ binding site [ion binding]; other site 642492009672 Mg2+ binding site [ion binding]; other site 642492009673 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009674 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 642492009675 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 642492009676 putative active site [active] 642492009677 putative metal binding site [ion binding]; other site 642492009678 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 642492009679 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 642492009680 active site 642492009681 motif I; other site 642492009682 motif II; other site 642492009683 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 642492009684 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 642492009685 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 642492009686 dimerization interface 3.5A [polypeptide binding]; other site 642492009687 active site 642492009688 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492009689 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 642492009690 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 642492009691 QueT transporter; Region: QueT; pfam06177 642492009692 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 642492009693 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 642492009694 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 642492009695 FeS/SAM binding site; other site 642492009696 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 642492009697 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 642492009698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492009699 Coenzyme A binding pocket [chemical binding]; other site 642492009700 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492009701 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 642492009702 substrate binding pocket [chemical binding]; other site 642492009703 membrane-bound complex binding site; other site 642492009704 hinge residues; other site 642492009705 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 642492009706 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009707 dimer interface [polypeptide binding]; other site 642492009708 conserved gate region; other site 642492009709 putative PBP binding loops; other site 642492009710 ABC-ATPase subunit interface; other site 642492009711 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492009712 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 642492009713 Walker A/P-loop; other site 642492009714 ATP binding site [chemical binding]; other site 642492009715 Q-loop/lid; other site 642492009716 ABC transporter signature motif; other site 642492009717 Walker B; other site 642492009718 D-loop; other site 642492009719 H-loop/switch region; other site 642492009720 Uncharacterized conserved protein [Function unknown]; Region: COG0397 642492009721 hypothetical protein; Validated; Region: PRK00029 642492009722 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 642492009723 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 642492009724 Walker A/P-loop; other site 642492009725 ATP binding site [chemical binding]; other site 642492009726 Q-loop/lid; other site 642492009727 ABC transporter signature motif; other site 642492009728 Walker B; other site 642492009729 D-loop; other site 642492009730 H-loop/switch region; other site 642492009731 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492009732 dimer interface [polypeptide binding]; other site 642492009733 conserved gate region; other site 642492009734 putative PBP binding loops; other site 642492009735 ABC-ATPase subunit interface; other site 642492009736 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492009737 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 642492009738 substrate binding pocket [chemical binding]; other site 642492009739 membrane-bound complex binding site; other site 642492009740 hinge residues; other site 642492009741 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 642492009742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492009743 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 642492009744 Coenzyme A binding pocket [chemical binding]; other site 642492009745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 642492009746 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 642492009747 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 642492009748 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 642492009749 Protein export membrane protein; Region: SecD_SecF; cl14618 642492009750 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 642492009751 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 642492009752 Peptidase M16C associated; Region: M16C_assoc; pfam08367 642492009753 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 642492009754 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 642492009755 TPP-binding site [chemical binding]; other site 642492009756 dimer interface [polypeptide binding]; other site 642492009757 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 642492009758 PYR/PP interface [polypeptide binding]; other site 642492009759 dimer interface [polypeptide binding]; other site 642492009760 TPP binding site [chemical binding]; other site 642492009761 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492009762 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 642492009763 DNA binding site [nucleotide binding] 642492009764 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 642492009765 IncA protein; Region: IncA; pfam04156 642492009766 Predicted transcriptional regulators [Transcription]; Region: COG1695 642492009767 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 642492009768 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 642492009769 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 642492009770 Walker A motif; other site 642492009771 ATP binding site [chemical binding]; other site 642492009772 Walker B motif; other site 642492009773 Uncharacterized conserved protein [Function unknown]; Region: COG3410 642492009774 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 642492009775 oligomer interface [polypeptide binding]; other site 642492009776 homodimer interface [polypeptide binding]; other site 642492009777 chemical substrate binding site [chemical binding]; other site 642492009778 metal binding site [ion binding]; metal-binding site 642492009779 ATP-grasp domain; Region: ATP-grasp_4; cl17255 642492009780 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 642492009781 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 642492009782 C-terminal peptidase (prc); Region: prc; TIGR00225 642492009783 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 642492009784 protein binding site [polypeptide binding]; other site 642492009785 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 642492009786 Catalytic dyad [active] 642492009787 C-terminal peptidase (prc); Region: prc; TIGR00225 642492009788 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 642492009789 protein binding site [polypeptide binding]; other site 642492009790 Peptidase family S41; Region: Peptidase_S41; pfam03572 642492009791 Active site serine [active] 642492009792 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 642492009793 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492009794 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 642492009795 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 642492009796 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 642492009797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492009798 Walker A/P-loop; other site 642492009799 ATP binding site [chemical binding]; other site 642492009800 Q-loop/lid; other site 642492009801 ABC transporter signature motif; other site 642492009802 Walker B; other site 642492009803 D-loop; other site 642492009804 H-loop/switch region; other site 642492009805 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 642492009806 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 642492009807 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 642492009808 Walker A/P-loop; other site 642492009809 ATP binding site [chemical binding]; other site 642492009810 Q-loop/lid; other site 642492009811 ABC transporter signature motif; other site 642492009812 Walker B; other site 642492009813 D-loop; other site 642492009814 H-loop/switch region; other site 642492009815 TOBE domain; Region: TOBE_2; pfam08402 642492009816 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 642492009817 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 642492009818 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 642492009819 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 642492009820 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 642492009821 Transcriptional regulator [Transcription]; Region: LytR; COG1316 642492009822 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 642492009823 endonuclease IV; Provisional; Region: PRK01060 642492009824 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 642492009825 AP (apurinic/apyrimidinic) site pocket; other site 642492009826 DNA interaction; other site 642492009827 Metal-binding active site; metal-binding site 642492009828 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 642492009829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 642492009830 NAD(P) binding site [chemical binding]; other site 642492009831 active site 642492009832 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 642492009833 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 642492009834 Transcriptional regulator [Transcription]; Region: LytR; COG1316 642492009835 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 642492009836 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 642492009837 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 642492009838 23S rRNA interface [nucleotide binding]; other site 642492009839 L3 interface [polypeptide binding]; other site 642492009840 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 642492009841 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 642492009842 dimerization interface 3.5A [polypeptide binding]; other site 642492009843 active site 642492009844 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 642492009845 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 642492009846 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 642492009847 Walker A/P-loop; other site 642492009848 ATP binding site [chemical binding]; other site 642492009849 Q-loop/lid; other site 642492009850 ABC transporter signature motif; other site 642492009851 Walker B; other site 642492009852 D-loop; other site 642492009853 H-loop/switch region; other site 642492009854 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 642492009855 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 642492009856 Walker A/P-loop; other site 642492009857 ATP binding site [chemical binding]; other site 642492009858 Q-loop/lid; other site 642492009859 ABC transporter signature motif; other site 642492009860 Walker B; other site 642492009861 D-loop; other site 642492009862 H-loop/switch region; other site 642492009863 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 642492009864 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 642492009865 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 642492009866 alphaNTD homodimer interface [polypeptide binding]; other site 642492009867 alphaNTD - beta interaction site [polypeptide binding]; other site 642492009868 alphaNTD - beta' interaction site [polypeptide binding]; other site 642492009869 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 642492009870 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 642492009871 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 642492009872 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 642492009873 RNA binding surface [nucleotide binding]; other site 642492009874 30S ribosomal protein S11; Validated; Region: PRK05309 642492009875 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 642492009876 30S ribosomal protein S13; Region: bact_S13; TIGR03631 642492009877 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 642492009878 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 642492009879 rRNA binding site [nucleotide binding]; other site 642492009880 predicted 30S ribosome binding site; other site 642492009881 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 642492009882 RNA binding site [nucleotide binding]; other site 642492009883 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 642492009884 active site 642492009885 adenylate kinase; Reviewed; Region: adk; PRK00279 642492009886 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 642492009887 AMP-binding site [chemical binding]; other site 642492009888 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 642492009889 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 642492009890 SecY translocase; Region: SecY; pfam00344 642492009891 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 642492009892 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 642492009893 23S rRNA binding site [nucleotide binding]; other site 642492009894 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 642492009895 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 642492009896 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 642492009897 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 642492009898 5S rRNA interface [nucleotide binding]; other site 642492009899 L27 interface [polypeptide binding]; other site 642492009900 23S rRNA interface [nucleotide binding]; other site 642492009901 L5 interface [polypeptide binding]; other site 642492009902 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 642492009903 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 642492009904 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 642492009905 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 642492009906 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 642492009907 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 642492009908 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 642492009909 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 642492009910 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 642492009911 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 642492009912 RNA binding site [nucleotide binding]; other site 642492009913 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 642492009914 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 642492009915 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 642492009916 putative translocon interaction site; other site 642492009917 23S rRNA interface [nucleotide binding]; other site 642492009918 signal recognition particle (SRP54) interaction site; other site 642492009919 L23 interface [polypeptide binding]; other site 642492009920 trigger factor interaction site; other site 642492009921 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 642492009922 23S rRNA interface [nucleotide binding]; other site 642492009923 5S rRNA interface [nucleotide binding]; other site 642492009924 putative antibiotic binding site [chemical binding]; other site 642492009925 L25 interface [polypeptide binding]; other site 642492009926 L27 interface [polypeptide binding]; other site 642492009927 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 642492009928 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 642492009929 G-X-X-G motif; other site 642492009930 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 642492009931 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 642492009932 putative translocon binding site; other site 642492009933 protein-rRNA interface [nucleotide binding]; other site 642492009934 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 642492009935 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 642492009936 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 642492009937 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 642492009938 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 642492009939 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 642492009940 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 642492009941 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 642492009942 elongation factor Tu; Reviewed; Region: PRK00049 642492009943 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 642492009944 G1 box; other site 642492009945 GEF interaction site [polypeptide binding]; other site 642492009946 GTP/Mg2+ binding site [chemical binding]; other site 642492009947 Switch I region; other site 642492009948 G2 box; other site 642492009949 G3 box; other site 642492009950 Switch II region; other site 642492009951 G4 box; other site 642492009952 G5 box; other site 642492009953 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 642492009954 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 642492009955 Antibiotic Binding Site [chemical binding]; other site 642492009956 elongation factor G; Reviewed; Region: PRK00007 642492009957 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 642492009958 G1 box; other site 642492009959 putative GEF interaction site [polypeptide binding]; other site 642492009960 GTP/Mg2+ binding site [chemical binding]; other site 642492009961 Switch I region; other site 642492009962 G2 box; other site 642492009963 G3 box; other site 642492009964 Switch II region; other site 642492009965 G4 box; other site 642492009966 G5 box; other site 642492009967 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 642492009968 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 642492009969 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 642492009970 30S ribosomal protein S7; Validated; Region: PRK05302 642492009971 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 642492009972 S17 interaction site [polypeptide binding]; other site 642492009973 S8 interaction site; other site 642492009974 16S rRNA interaction site [nucleotide binding]; other site 642492009975 streptomycin interaction site [chemical binding]; other site 642492009976 23S rRNA interaction site [nucleotide binding]; other site 642492009977 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 642492009978 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 642492009979 Uncharacterized conserved protein [Function unknown]; Region: COG1434 642492009980 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 642492009981 putative active site [active] 642492009982 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 642492009983 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 642492009984 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 642492009985 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 642492009986 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 642492009987 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 642492009988 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 642492009989 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 642492009990 G-loop; other site 642492009991 DNA binding site [nucleotide binding] 642492009992 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 642492009993 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 642492009994 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 642492009995 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 642492009996 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 642492009997 RPB10 interaction site [polypeptide binding]; other site 642492009998 RPB1 interaction site [polypeptide binding]; other site 642492009999 RPB11 interaction site [polypeptide binding]; other site 642492010000 RPB3 interaction site [polypeptide binding]; other site 642492010001 RPB12 interaction site [polypeptide binding]; other site 642492010002 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 642492010003 core dimer interface [polypeptide binding]; other site 642492010004 peripheral dimer interface [polypeptide binding]; other site 642492010005 L10 interface [polypeptide binding]; other site 642492010006 L11 interface [polypeptide binding]; other site 642492010007 putative EF-Tu interaction site [polypeptide binding]; other site 642492010008 putative EF-G interaction site [polypeptide binding]; other site 642492010009 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 642492010010 23S rRNA interface [nucleotide binding]; other site 642492010011 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 642492010012 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 642492010013 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 642492010014 inhibitor-cofactor binding pocket; inhibition site 642492010015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010016 catalytic residue [active] 642492010017 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 642492010018 Methyltransferase domain; Region: Methyltransf_31; pfam13847 642492010019 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 642492010020 S-adenosylmethionine binding site [chemical binding]; other site 642492010021 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010022 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 642492010023 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 642492010024 mRNA/rRNA interface [nucleotide binding]; other site 642492010025 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 642492010026 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 642492010027 23S rRNA interface [nucleotide binding]; other site 642492010028 L7/L12 interface [polypeptide binding]; other site 642492010029 putative thiostrepton binding site; other site 642492010030 L25 interface [polypeptide binding]; other site 642492010031 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 642492010032 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 642492010033 putative homodimer interface [polypeptide binding]; other site 642492010034 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 642492010035 heterodimer interface [polypeptide binding]; other site 642492010036 homodimer interface [polypeptide binding]; other site 642492010037 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 642492010038 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 642492010039 ligand binding site; other site 642492010040 tetramer interface; other site 642492010041 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 642492010042 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 642492010043 active site 642492010044 homodimer interface [polypeptide binding]; other site 642492010045 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 642492010046 NeuB family; Region: NeuB; pfam03102 642492010047 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 642492010048 NeuB binding interface [polypeptide binding]; other site 642492010049 putative substrate binding site [chemical binding]; other site 642492010050 rod shape-determining protein MreC; Provisional; Region: PRK13922 642492010051 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 642492010052 TPR motif; other site 642492010053 TPR repeat; Region: TPR_11; pfam13414 642492010054 binding surface 642492010055 Sulfatase; Region: Sulfatase; cl17466 642492010056 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 642492010057 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 642492010058 PYR/PP interface [polypeptide binding]; other site 642492010059 dimer interface [polypeptide binding]; other site 642492010060 TPP binding site [chemical binding]; other site 642492010061 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 642492010062 TPP-binding site; other site 642492010063 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 642492010064 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 642492010065 putative active site [active] 642492010066 metal binding site [ion binding]; metal-binding site 642492010067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492010068 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 642492010069 active site 642492010070 nucleotide binding site [chemical binding]; other site 642492010071 HIGH motif; other site 642492010072 KMSKS motif; other site 642492010073 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 642492010074 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 642492010075 tetramer interface [polypeptide binding]; other site 642492010076 active site 642492010077 Mg2+/Mn2+ binding site [ion binding]; other site 642492010078 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 642492010079 active site 642492010080 metal-binding site 642492010081 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 642492010082 active site 642492010083 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 642492010084 binding surface 642492010085 TPR motif; other site 642492010086 TPR repeat; Region: TPR_11; pfam13414 642492010087 Sulfatase; Region: Sulfatase; cl17466 642492010088 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 642492010089 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 642492010090 putative trimer interface [polypeptide binding]; other site 642492010091 putative CoA binding site [chemical binding]; other site 642492010092 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 642492010093 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 642492010094 NAD binding site [chemical binding]; other site 642492010095 substrate binding site [chemical binding]; other site 642492010096 active site 642492010097 FOG: CBS domain [General function prediction only]; Region: COG0517 642492010098 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 642492010099 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 642492010100 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 642492010101 Substrate binding site; other site 642492010102 metal-binding site 642492010103 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 642492010104 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 642492010105 inhibitor-cofactor binding pocket; inhibition site 642492010106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010107 catalytic residue [active] 642492010108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 642492010109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 642492010110 Flagellar protein FliS; Region: FliS; cl00654 642492010111 flagellar capping protein; Validated; Region: fliD; PRK07737 642492010112 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 642492010113 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 642492010114 FlaG protein; Region: FlaG; pfam03646 642492010115 flagellin; Provisional; Region: PRK12804 642492010116 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492010117 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 642492010118 carbon storage regulator; Provisional; Region: PRK01712 642492010119 flagellar assembly protein FliW; Provisional; Region: PRK13285 642492010120 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 642492010121 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 642492010122 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 642492010123 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 642492010124 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 642492010125 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 642492010126 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 642492010127 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 642492010128 FlgN protein; Region: FlgN; pfam05130 642492010129 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 642492010130 flagellar operon protein TIGR03826; Region: YvyF 642492010131 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 642492010132 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492010133 active site 642492010134 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 642492010135 AAA domain; Region: AAA_30; pfam13604 642492010136 Family description; Region: UvrD_C_2; pfam13538 642492010137 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010138 S-adenosylmethionine synthetase; Validated; Region: PRK05250 642492010139 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 642492010140 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 642492010141 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 642492010142 Rod binding protein; Region: Rod-binding; cl01626 642492010143 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 642492010144 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 642492010145 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 642492010146 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 642492010147 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 642492010148 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 642492010149 rod shape-determining protein MreB; Provisional; Region: PRK13927 642492010150 MreB and similar proteins; Region: MreB_like; cd10225 642492010151 nucleotide binding site [chemical binding]; other site 642492010152 Mg binding site [ion binding]; other site 642492010153 putative protofilament interaction site [polypeptide binding]; other site 642492010154 RodZ interaction site [polypeptide binding]; other site 642492010155 Stage III sporulation protein D; Region: SpoIIID; pfam12116 642492010156 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 642492010157 catalytic triad [active] 642492010158 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 642492010159 Peptidase family M23; Region: Peptidase_M23; pfam01551 642492010160 Stage II sporulation protein; Region: SpoIID; pfam08486 642492010161 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 642492010162 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 642492010163 Interdomain contacts; other site 642492010164 Cytokine receptor motif; other site 642492010165 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 642492010166 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 642492010167 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 642492010168 minor groove reading motif; other site 642492010169 helix-hairpin-helix signature motif; other site 642492010170 substrate binding pocket [chemical binding]; other site 642492010171 active site 642492010172 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 642492010173 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 642492010174 DNA binding and oxoG recognition site [nucleotide binding] 642492010175 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 642492010176 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 642492010177 gamma subunit interface [polypeptide binding]; other site 642492010178 epsilon subunit interface [polypeptide binding]; other site 642492010179 LBP interface [polypeptide binding]; other site 642492010180 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 642492010181 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 642492010182 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 642492010183 alpha subunit interaction interface [polypeptide binding]; other site 642492010184 Walker A motif; other site 642492010185 ATP binding site [chemical binding]; other site 642492010186 Walker B motif; other site 642492010187 inhibitor binding site; inhibition site 642492010188 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492010189 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 642492010190 core domain interface [polypeptide binding]; other site 642492010191 delta subunit interface [polypeptide binding]; other site 642492010192 epsilon subunit interface [polypeptide binding]; other site 642492010193 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 642492010194 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 642492010195 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 642492010196 beta subunit interaction interface [polypeptide binding]; other site 642492010197 Walker A motif; other site 642492010198 ATP binding site [chemical binding]; other site 642492010199 Walker B motif; other site 642492010200 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 642492010201 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 642492010202 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 642492010203 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 642492010204 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 642492010205 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 642492010206 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 642492010207 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 642492010208 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 642492010209 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 642492010210 ATP synthase I chain; Region: ATP_synt_I; cl09170 642492010211 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 642492010212 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 642492010213 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 642492010214 active site 642492010215 homodimer interface [polypeptide binding]; other site 642492010216 GAF domain; Region: GAF; cl17456 642492010217 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 642492010218 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492010219 metal binding site [ion binding]; metal-binding site 642492010220 active site 642492010221 I-site; other site 642492010222 EDD domain protein, DegV family; Region: DegV; TIGR00762 642492010223 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 642492010224 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 642492010225 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 642492010226 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 642492010227 substrate binding pocket [chemical binding]; other site 642492010228 dimer interface [polypeptide binding]; other site 642492010229 inhibitor binding site; inhibition site 642492010230 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 642492010231 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 642492010232 B12 binding site [chemical binding]; other site 642492010233 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 642492010234 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 642492010235 FAD binding site [chemical binding]; other site 642492010236 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 642492010237 active site 642492010238 DNA binding site [nucleotide binding] 642492010239 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 642492010240 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 642492010241 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 642492010242 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 642492010243 putative active site [active] 642492010244 catalytic site [active] 642492010245 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 642492010246 putative active site [active] 642492010247 catalytic site [active] 642492010248 Protein of unknown function (DUF342); Region: DUF342; pfam03961 642492010249 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 642492010250 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 642492010251 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 642492010252 putative acyl-acceptor binding pocket; other site 642492010253 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 642492010254 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 642492010255 active site 642492010256 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 642492010257 EamA-like transporter family; Region: EamA; pfam00892 642492010258 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492010259 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 642492010260 active site 642492010261 phosphorylation site [posttranslational modification] 642492010262 intermolecular recognition site; other site 642492010263 dimerization interface [polypeptide binding]; other site 642492010264 LytTr DNA-binding domain; Region: LytTR; pfam04397 642492010265 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492010266 Response regulator receiver domain; Region: Response_reg; pfam00072 642492010267 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 642492010268 active site 642492010269 phosphorylation site [posttranslational modification] 642492010270 intermolecular recognition site; other site 642492010271 dimerization interface [polypeptide binding]; other site 642492010272 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 642492010273 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 642492010274 HIGH motif; other site 642492010275 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 642492010276 active site 642492010277 KMSKS motif; other site 642492010278 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 642492010279 tRNA binding surface [nucleotide binding]; other site 642492010280 anticodon binding site; other site 642492010281 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492010282 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492010283 dimer interface [polypeptide binding]; other site 642492010284 putative CheW interface [polypeptide binding]; other site 642492010285 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492010286 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492010287 dimer interface [polypeptide binding]; other site 642492010288 putative CheW interface [polypeptide binding]; other site 642492010289 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 642492010290 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 642492010291 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 642492010292 acyl-activating enzyme (AAE) consensus motif; other site 642492010293 acyl-activating enzyme (AAE) consensus motif; other site 642492010294 putative AMP binding site [chemical binding]; other site 642492010295 putative active site [active] 642492010296 putative CoA binding site [chemical binding]; other site 642492010297 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 642492010298 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 642492010299 active site 642492010300 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 642492010301 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 642492010302 inhibitor-cofactor binding pocket; inhibition site 642492010303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010304 catalytic residue [active] 642492010305 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 642492010306 dimer interface [polypeptide binding]; other site 642492010307 active site 642492010308 Schiff base residues; other site 642492010309 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 642492010310 active site 642492010311 SAM binding site [chemical binding]; other site 642492010312 homodimer interface [polypeptide binding]; other site 642492010313 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 642492010314 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 642492010315 active site 642492010316 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 642492010317 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 642492010318 domain interfaces; other site 642492010319 active site 642492010320 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 642492010321 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 642492010322 tRNA; other site 642492010323 putative tRNA binding site [nucleotide binding]; other site 642492010324 putative NADP binding site [chemical binding]; other site 642492010325 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 642492010326 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 642492010327 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 642492010328 active site 642492010329 C-terminal domain interface [polypeptide binding]; other site 642492010330 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 642492010331 active site 642492010332 N-terminal domain interface [polypeptide binding]; other site 642492010333 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 642492010334 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492010335 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492010336 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492010337 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 642492010338 Cellulose binding domain; Region: CBM_3; cl03026 642492010339 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 642492010340 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 642492010341 Cl binding site [ion binding]; other site 642492010342 oligomer interface [polypeptide binding]; other site 642492010343 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 642492010344 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 642492010345 HlyD family secretion protein; Region: HlyD_3; pfam13437 642492010346 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 642492010347 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 642492010348 putative active site [active] 642492010349 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492010350 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492010351 Walker A/P-loop; other site 642492010352 ATP binding site [chemical binding]; other site 642492010353 Q-loop/lid; other site 642492010354 ABC transporter signature motif; other site 642492010355 Walker B; other site 642492010356 D-loop; other site 642492010357 H-loop/switch region; other site 642492010358 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 642492010359 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 642492010360 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 642492010361 active site 642492010362 phosphorylation site [posttranslational modification] 642492010363 intermolecular recognition site; other site 642492010364 dimerization interface [polypeptide binding]; other site 642492010365 LytTr DNA-binding domain; Region: LytTR; pfam04397 642492010366 endoglucanase; Region: PLN02308 642492010367 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; pfam00759 642492010368 Cellulose binding domain; Region: CBM_3; smart01067 642492010369 Cellulose binding domain; Region: CBM_3; pfam00942 642492010370 Glycosyl hydrolase family 48; Region: Glyco_hydro_48; pfam02011 642492010371 Cellulose binding domain; Region: CBM_3; cl03026 642492010372 DNA polymerase IV; Reviewed; Region: PRK03103 642492010373 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 642492010374 active site 642492010375 DNA binding site [nucleotide binding] 642492010376 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 642492010377 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 642492010378 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 642492010379 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492010380 Soluble P-type ATPase [General function prediction only]; Region: COG4087 642492010381 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 642492010382 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 642492010383 active site 642492010384 metal binding site [ion binding]; metal-binding site 642492010385 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 642492010386 Penicillinase repressor; Region: Pencillinase_R; pfam03965 642492010387 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 642492010388 homodimer interface [polypeptide binding]; other site 642492010389 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 642492010390 active site pocket [active] 642492010391 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 642492010392 Ligand Binding Site [chemical binding]; other site 642492010393 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 642492010394 metal binding site [ion binding]; metal-binding site 642492010395 active site 642492010396 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 642492010397 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492010398 putative sugar binding sites [chemical binding]; other site 642492010399 Q-X-W motif; other site 642492010400 Cellulose binding domain; Region: CBM_2; cl17741 642492010401 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 642492010402 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 642492010403 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 642492010404 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 642492010405 active site 642492010406 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 642492010407 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 642492010408 Mg++ binding site [ion binding]; other site 642492010409 putative catalytic motif [active] 642492010410 substrate binding site [chemical binding]; other site 642492010411 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 642492010412 PilZ domain; Region: PilZ; pfam07238 642492010413 putative hydratase; Provisional; Region: PRK11413 642492010414 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 642492010415 substrate binding site [chemical binding]; other site 642492010416 ligand binding site [chemical binding]; other site 642492010417 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 642492010418 substrate binding site [chemical binding]; other site 642492010419 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492010420 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492010421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492010422 HAMP domain; Region: HAMP; pfam00672 642492010423 Histidine kinase; Region: His_kinase; pfam06580 642492010424 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 642492010425 ATP binding site [chemical binding]; other site 642492010426 Mg2+ binding site [ion binding]; other site 642492010427 G-X-G motif; other site 642492010428 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 642492010429 Response regulator receiver domain; Region: Response_reg; pfam00072 642492010430 active site 642492010431 phosphorylation site [posttranslational modification] 642492010432 intermolecular recognition site; other site 642492010433 dimerization interface [polypeptide binding]; other site 642492010434 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 642492010435 metal binding triad [ion binding]; metal-binding site 642492010436 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 642492010437 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 642492010438 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 642492010439 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 642492010440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 642492010441 Uncharacterized membrane protein [Function unknown]; Region: COG3949 642492010442 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 642492010443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492010444 Zn2+ binding site [ion binding]; other site 642492010445 Mg2+ binding site [ion binding]; other site 642492010446 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 642492010447 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 642492010448 Nitrogen regulatory protein P-II; Region: P-II; smart00938 642492010449 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 642492010450 active site 642492010451 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 642492010452 dimer interface [polypeptide binding]; other site 642492010453 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 642492010454 Ligand Binding Site [chemical binding]; other site 642492010455 Molecular Tunnel; other site 642492010456 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 642492010457 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 642492010458 DEAD_2; Region: DEAD_2; pfam06733 642492010459 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 642492010460 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 642492010461 DHH family; Region: DHH; pfam01368 642492010462 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 642492010463 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 642492010464 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 642492010465 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 642492010466 Domain of unknown function (DUF303); Region: DUF303; pfam03629 642492010467 Phage-related protein [Function unknown]; Region: COG5412 642492010468 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 642492010469 Protein of unknown function, DUF600; Region: DUF600; cl04640 642492010470 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 642492010471 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492010472 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 642492010473 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010474 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492010475 Transposase; Region: HTH_Tnp_1; pfam01527 642492010476 putative transposase OrfB; Reviewed; Region: PHA02517 642492010477 HTH-like domain; Region: HTH_21; pfam13276 642492010478 Integrase core domain; Region: rve; pfam00665 642492010479 Integrase core domain; Region: rve_3; pfam13683 642492010480 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 642492010481 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 642492010482 nucleophilic elbow; other site 642492010483 catalytic triad; other site 642492010484 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010485 KWG Leptospira; Region: KWG; pfam07656 642492010486 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 642492010487 NlpC/P60 family; Region: NLPC_P60; pfam00877 642492010488 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010489 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010490 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 642492010491 NlpC/P60 family; Region: NLPC_P60; pfam00877 642492010492 Lysozyme family protein [General function prediction only]; Region: COG5526 642492010493 Proteins of 100 residues with WXG; Region: WXG100; cl02005 642492010494 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010495 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 642492010496 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 642492010497 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 642492010498 DNA-binding residues [nucleotide binding]; DNA binding site 642492010499 nucleotide binding site [chemical binding]; other site 642492010500 polymerase nucleotide-binding site; other site 642492010501 primase nucleotide-binding site [nucleotide binding]; other site 642492010502 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 642492010503 D5 N terminal like; Region: D5_N; pfam08706 642492010504 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010505 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010506 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 642492010507 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 642492010508 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 642492010509 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 642492010510 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 642492010511 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 642492010512 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 642492010513 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 642492010514 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 642492010515 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; pfam08817 642492010516 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 642492010517 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 642492010518 Walker A motif; other site 642492010519 ATP binding site [chemical binding]; other site 642492010520 Walker B motif; other site 642492010521 AAA domain; Region: AAA_31; pfam13614 642492010522 AAA domain; Region: AAA_31; pfam13614 642492010523 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 642492010524 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 642492010525 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 642492010526 hinge; other site 642492010527 active site 642492010528 YycH protein; Region: YycI; cl02015 642492010529 Fanconi anaemia group A protein; Region: Fanconi_A; pfam03511 642492010530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 642492010531 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 642492010532 dimerization interface [polypeptide binding]; other site 642492010533 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 642492010534 dimer interface [polypeptide binding]; other site 642492010535 phosphorylation site [posttranslational modification] 642492010536 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 642492010537 ATP binding site [chemical binding]; other site 642492010538 Mg2+ binding site [ion binding]; other site 642492010539 G-X-G motif; other site 642492010540 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492010541 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 642492010542 active site 642492010543 phosphorylation site [posttranslational modification] 642492010544 intermolecular recognition site; other site 642492010545 dimerization interface [polypeptide binding]; other site 642492010546 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 642492010547 DNA binding site [nucleotide binding] 642492010548 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 642492010549 S-layer homology domain; Region: SLH; pfam00395 642492010550 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 642492010551 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 642492010552 DNA binding residues [nucleotide binding] 642492010553 putative lipid kinase; Reviewed; Region: PRK13059 642492010554 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 642492010555 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 642492010556 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 642492010557 Walker A/P-loop; other site 642492010558 ATP binding site [chemical binding]; other site 642492010559 Q-loop/lid; other site 642492010560 ABC transporter signature motif; other site 642492010561 Walker B; other site 642492010562 D-loop; other site 642492010563 H-loop/switch region; other site 642492010564 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 642492010565 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 642492010566 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 642492010567 Walker A/P-loop; other site 642492010568 ATP binding site [chemical binding]; other site 642492010569 Q-loop/lid; other site 642492010570 ABC transporter signature motif; other site 642492010571 Walker B; other site 642492010572 D-loop; other site 642492010573 H-loop/switch region; other site 642492010574 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 642492010575 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 642492010576 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 642492010577 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492010578 dimer interface [polypeptide binding]; other site 642492010579 conserved gate region; other site 642492010580 putative PBP binding loops; other site 642492010581 ABC-ATPase subunit interface; other site 642492010582 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 642492010583 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492010584 putative PBP binding loops; other site 642492010585 dimer interface [polypeptide binding]; other site 642492010586 ABC-ATPase subunit interface; other site 642492010587 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 642492010588 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 642492010589 peptide binding site [polypeptide binding]; other site 642492010590 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010591 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 642492010592 putative ADP-binding pocket [chemical binding]; other site 642492010593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010594 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 642492010595 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010596 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 642492010597 Predicted membrane protein [Function unknown]; Region: COG2246 642492010598 GtrA-like protein; Region: GtrA; pfam04138 642492010599 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 642492010600 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 642492010601 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 642492010602 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 642492010603 Methyltransferase domain; Region: Methyltransf_23; pfam13489 642492010604 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 642492010605 S-adenosylmethionine binding site [chemical binding]; other site 642492010606 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 642492010607 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 642492010608 Ligand binding site; other site 642492010609 Putative Catalytic site; other site 642492010610 DXD motif; other site 642492010611 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 642492010612 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 642492010613 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 642492010614 NAD binding site [chemical binding]; other site 642492010615 substrate binding site [chemical binding]; other site 642492010616 homodimer interface [polypeptide binding]; other site 642492010617 active site 642492010618 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 642492010619 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 642492010620 substrate binding site; other site 642492010621 tetramer interface; other site 642492010622 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 642492010623 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 642492010624 Ligand binding site; other site 642492010625 Putative Catalytic site; other site 642492010626 DXD motif; other site 642492010627 WxcM-like, C-terminal; Region: FdtA; pfam05523 642492010628 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492010629 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 642492010630 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 642492010631 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 642492010632 inhibitor-cofactor binding pocket; inhibition site 642492010633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010634 catalytic residue [active] 642492010635 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 642492010636 Acyltransferase family; Region: Acyl_transf_3; pfam01757 642492010637 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 642492010638 AMP deaminase; Region: PLN02768 642492010639 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010640 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 642492010641 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 642492010642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010643 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 642492010644 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 642492010645 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 642492010646 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 642492010647 S-adenosylmethionine binding site [chemical binding]; other site 642492010648 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 642492010649 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 642492010650 Walker A/P-loop; other site 642492010651 ATP binding site [chemical binding]; other site 642492010652 Q-loop/lid; other site 642492010653 ABC transporter signature motif; other site 642492010654 Walker B; other site 642492010655 D-loop; other site 642492010656 H-loop/switch region; other site 642492010657 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 642492010658 ABC-2 type transporter; Region: ABC2_membrane; cl17235 642492010659 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 642492010660 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 642492010661 inhibitor-cofactor binding pocket; inhibition site 642492010662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010663 catalytic residue [active] 642492010664 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 642492010665 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 642492010666 putative trimer interface [polypeptide binding]; other site 642492010667 putative CoA binding site [chemical binding]; other site 642492010668 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 642492010669 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 642492010670 NADP-binding site; other site 642492010671 homotetramer interface [polypeptide binding]; other site 642492010672 substrate binding site [chemical binding]; other site 642492010673 homodimer interface [polypeptide binding]; other site 642492010674 active site 642492010675 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 642492010676 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 642492010677 NADP-binding site; other site 642492010678 homotetramer interface [polypeptide binding]; other site 642492010679 substrate binding site [chemical binding]; other site 642492010680 homodimer interface [polypeptide binding]; other site 642492010681 active site 642492010682 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 642492010683 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 642492010684 Substrate binding site; other site 642492010685 Cupin domain; Region: Cupin_2; cl17218 642492010686 O-Antigen ligase; Region: Wzy_C; pfam04932 642492010687 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 642492010688 Bacterial sugar transferase; Region: Bac_transf; pfam02397 642492010689 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010690 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010691 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010692 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010693 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010694 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010695 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010696 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 642492010697 putative active site [active] 642492010698 putative metal binding site [ion binding]; other site 642492010699 S-layer homology domain; Region: SLH; pfam00395 642492010700 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 642492010701 active site 642492010702 tetramer interface; other site 642492010703 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 642492010704 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 642492010705 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 642492010706 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 642492010707 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 642492010708 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 642492010709 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 642492010710 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 642492010711 Spore germination protein; Region: Spore_permease; cl17796 642492010712 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 642492010713 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492010714 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492010715 DNA binding site [nucleotide binding] 642492010716 domain linker motif; other site 642492010717 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 642492010718 dimerization interface [polypeptide binding]; other site 642492010719 ligand binding site [chemical binding]; other site 642492010720 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 642492010721 homodimer interface [polypeptide binding]; other site 642492010722 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 642492010723 active site pocket [active] 642492010724 4-alpha-glucanotransferase; Provisional; Region: PRK14508 642492010725 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492010726 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492010727 dimer interface [polypeptide binding]; other site 642492010728 conserved gate region; other site 642492010729 putative PBP binding loops; other site 642492010730 ABC-ATPase subunit interface; other site 642492010731 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 642492010732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492010733 dimer interface [polypeptide binding]; other site 642492010734 conserved gate region; other site 642492010735 putative PBP binding loops; other site 642492010736 ABC-ATPase subunit interface; other site 642492010737 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492010738 Transcriptional regulators [Transcription]; Region: PurR; COG1609 642492010739 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 642492010740 DNA binding site [nucleotide binding] 642492010741 domain linker motif; other site 642492010742 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 642492010743 dimerization interface [polypeptide binding]; other site 642492010744 ligand binding site [chemical binding]; other site 642492010745 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 642492010746 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 642492010747 putative substrate binding site [chemical binding]; other site 642492010748 putative ATP binding site [chemical binding]; other site 642492010749 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 642492010750 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 642492010751 active site 642492010752 phosphorylation site [posttranslational modification] 642492010753 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 642492010754 active site 642492010755 P-loop; other site 642492010756 phosphorylation site [posttranslational modification] 642492010757 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 642492010758 Cache domain; Region: Cache_1; pfam02743 642492010759 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492010760 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492010761 dimer interface [polypeptide binding]; other site 642492010762 putative CheW interface [polypeptide binding]; other site 642492010763 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 642492010764 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 642492010765 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 642492010766 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 642492010767 putative active site [active] 642492010768 catalytic site [active] 642492010769 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 642492010770 putative active site [active] 642492010771 catalytic site [active] 642492010772 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 642492010773 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 642492010774 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 642492010775 active site 642492010776 catalytic residues [active] 642492010777 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 642492010778 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 642492010779 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 642492010780 homodimer interface [polypeptide binding]; other site 642492010781 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 642492010782 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 642492010783 active site 642492010784 homodimer interface [polypeptide binding]; other site 642492010785 catalytic site [active] 642492010786 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 642492010787 Helix-turn-helix domain; Region: HTH_18; pfam12833 642492010788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492010789 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 642492010790 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492010791 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 642492010792 substrate binding site [chemical binding]; other site 642492010793 ATP binding site [chemical binding]; other site 642492010794 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 642492010795 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 642492010796 substrate binding site [chemical binding]; other site 642492010797 ATP binding site [chemical binding]; other site 642492010798 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 642492010799 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 642492010800 active site 642492010801 intersubunit interface [polypeptide binding]; other site 642492010802 catalytic residue [active] 642492010803 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 642492010804 YheO-like PAS domain; Region: PAS_6; pfam08348 642492010805 HTH domain; Region: HTH_22; pfam13309 642492010806 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 642492010807 nudix motif; other site 642492010808 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492010809 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 642492010810 dimer interface [polypeptide binding]; other site 642492010811 phosphorylation site [posttranslational modification] 642492010812 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 642492010813 ATP binding site [chemical binding]; other site 642492010814 Mg2+ binding site [ion binding]; other site 642492010815 G-X-G motif; other site 642492010816 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492010817 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 642492010818 active site 642492010819 phosphorylation site [posttranslational modification] 642492010820 intermolecular recognition site; other site 642492010821 dimerization interface [polypeptide binding]; other site 642492010822 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 642492010823 DNA binding site [nucleotide binding] 642492010824 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010825 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 642492010826 Pectic acid lyase; Region: Pec_lyase; pfam09492 642492010827 YibE/F-like protein; Region: YibE_F; pfam07907 642492010828 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 642492010829 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 642492010830 active site 642492010831 dimer interface [polypeptide binding]; other site 642492010832 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 642492010833 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 642492010834 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 642492010835 metal binding site [ion binding]; metal-binding site 642492010836 active site 642492010837 I-site; other site 642492010838 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 642492010839 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 642492010840 putative catalytic cysteine [active] 642492010841 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 642492010842 putative active site [active] 642492010843 metal binding site [ion binding]; metal-binding site 642492010844 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492010845 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492010846 dimer interface [polypeptide binding]; other site 642492010847 putative CheW interface [polypeptide binding]; other site 642492010848 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 642492010849 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 642492010850 Protein of unknown function DUF58; Region: DUF58; pfam01882 642492010851 MoxR-like ATPases [General function prediction only]; Region: COG0714 642492010852 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 642492010853 Walker A motif; other site 642492010854 ATP binding site [chemical binding]; other site 642492010855 Walker B motif; other site 642492010856 arginine finger; other site 642492010857 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 642492010858 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 642492010859 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 642492010860 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 642492010861 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492010862 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 642492010863 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 642492010864 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 642492010865 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 642492010866 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 642492010867 Phosphopantetheine attachment site; Region: PP-binding; cl09936 642492010868 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 642492010869 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 642492010870 acyl-activating enzyme (AAE) consensus motif; other site 642492010871 AMP binding site [chemical binding]; other site 642492010872 active site 642492010873 CoA binding site [chemical binding]; other site 642492010874 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 642492010875 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 642492010876 active site 642492010877 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 642492010878 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 642492010879 acyl-activating enzyme (AAE) consensus motif; other site 642492010880 AMP binding site [chemical binding]; other site 642492010881 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 642492010882 Condensation domain; Region: Condensation; pfam00668 642492010883 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 642492010884 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 642492010885 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 642492010886 acyl-activating enzyme (AAE) consensus motif; other site 642492010887 AMP binding site [chemical binding]; other site 642492010888 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 642492010889 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492010890 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492010891 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492010892 Walker A/P-loop; other site 642492010893 ATP binding site [chemical binding]; other site 642492010894 Q-loop/lid; other site 642492010895 ABC transporter signature motif; other site 642492010896 Walker B; other site 642492010897 D-loop; other site 642492010898 H-loop/switch region; other site 642492010899 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 642492010900 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492010901 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 642492010902 dimer interface [polypeptide binding]; other site 642492010903 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 642492010904 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 642492010905 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492010906 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492010907 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 642492010908 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492010909 putative substrate translocation pore; other site 642492010910 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 642492010911 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 642492010912 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492010913 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 642492010914 DNA binding residues [nucleotide binding] 642492010915 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 642492010916 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492010917 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 642492010918 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 642492010919 Peptidase family U32; Region: Peptidase_U32; cl03113 642492010920 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492010921 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492010922 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 642492010923 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 642492010924 Predicted transcriptional regulators [Transcription]; Region: COG1695 642492010925 Transcriptional regulator PadR-like family; Region: PadR; cl17335 642492010926 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492010927 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 642492010928 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 642492010929 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 642492010930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492010931 Walker A/P-loop; other site 642492010932 ATP binding site [chemical binding]; other site 642492010933 Q-loop/lid; other site 642492010934 ABC transporter signature motif; other site 642492010935 Walker B; other site 642492010936 D-loop; other site 642492010937 H-loop/switch region; other site 642492010938 MutS domain III; Region: MutS_III; pfam05192 642492010939 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 642492010940 Walker A/P-loop; other site 642492010941 ATP binding site [chemical binding]; other site 642492010942 Q-loop/lid; other site 642492010943 ABC transporter signature motif; other site 642492010944 Walker B; other site 642492010945 D-loop; other site 642492010946 H-loop/switch region; other site 642492010947 von Willebrand factor type A domain; Region: VWA_2; pfam13519 642492010948 metal ion-dependent adhesion site (MIDAS); other site 642492010949 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 642492010950 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 642492010951 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 642492010952 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 642492010953 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 642492010954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010955 catalytic residue [active] 642492010956 Winged helix-turn helix; Region: HTH_29; pfam13551 642492010957 Homeodomain-like domain; Region: HTH_23; pfam13384 642492010958 Homeodomain-like domain; Region: HTH_32; pfam13565 642492010959 Winged helix-turn helix; Region: HTH_33; pfam13592 642492010960 DDE superfamily endonuclease; Region: DDE_3; pfam13358 642492010961 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 642492010962 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 642492010963 FeS/SAM binding site; other site 642492010964 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 642492010965 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 642492010966 dimer interface [polypeptide binding]; other site 642492010967 pyridoxal binding site [chemical binding]; other site 642492010968 ATP binding site [chemical binding]; other site 642492010969 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 642492010970 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492010971 DNA-binding site [nucleotide binding]; DNA binding site 642492010972 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 642492010973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492010974 homodimer interface [polypeptide binding]; other site 642492010975 catalytic residue [active] 642492010976 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 642492010977 Interdomain contacts; other site 642492010978 Cytokine receptor motif; other site 642492010979 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492010980 hypothetical protein; Provisional; Region: PRK07208 642492010981 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 642492010982 hydroxyglutarate oxidase; Provisional; Region: PRK11728 642492010983 TfoX C-terminal domain; Region: TfoX_C; pfam04994 642492010984 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 642492010985 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 642492010986 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 642492010987 beta-galactosidase; Region: BGL; TIGR03356 642492010988 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 642492010989 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 642492010990 active site turn [active] 642492010991 phosphorylation site [posttranslational modification] 642492010992 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 642492010993 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 642492010994 HPr interaction site; other site 642492010995 glycerol kinase (GK) interaction site [polypeptide binding]; other site 642492010996 active site 642492010997 phosphorylation site [posttranslational modification] 642492010998 transcriptional antiterminator BglG; Provisional; Region: PRK09772 642492010999 CAT RNA binding domain; Region: CAT_RBD; smart01061 642492011000 PRD domain; Region: PRD; pfam00874 642492011001 PRD domain; Region: PRD; pfam00874 642492011002 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 642492011003 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 642492011004 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 642492011005 active site 642492011006 nucleotide binding site [chemical binding]; other site 642492011007 HIGH motif; other site 642492011008 KMSKS motif; other site 642492011009 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 642492011010 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 642492011011 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 642492011012 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 642492011013 nudix motif; other site 642492011014 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 642492011015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011016 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 642492011017 DNA binding residues [nucleotide binding] 642492011018 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 642492011019 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 642492011020 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 642492011021 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 642492011022 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 642492011023 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 642492011024 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 642492011025 ligand binding site [chemical binding]; other site 642492011026 Predicted membrane protein [Function unknown]; Region: COG2323 642492011027 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 642492011028 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 642492011029 5S rRNA interface [nucleotide binding]; other site 642492011030 CTC domain interface [polypeptide binding]; other site 642492011031 L16 interface [polypeptide binding]; other site 642492011032 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 642492011033 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 642492011034 putative substrate translocation pore; other site 642492011035 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492011036 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 642492011037 active site 642492011038 phosphorylation site [posttranslational modification] 642492011039 intermolecular recognition site; other site 642492011040 dimerization interface [polypeptide binding]; other site 642492011041 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 642492011042 DNA binding site [nucleotide binding] 642492011043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492011044 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 642492011045 dimer interface [polypeptide binding]; other site 642492011046 phosphorylation site [posttranslational modification] 642492011047 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 642492011048 ATP binding site [chemical binding]; other site 642492011049 Mg2+ binding site [ion binding]; other site 642492011050 G-X-G motif; other site 642492011051 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 642492011052 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 642492011053 metal-binding site [ion binding] 642492011054 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 642492011055 Family description; Region: DsbD_2; pfam13386 642492011056 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 642492011057 metal-binding site [ion binding] 642492011058 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 642492011059 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 642492011060 metal-binding site [ion binding] 642492011061 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 642492011062 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 642492011063 metal-binding site [ion binding] 642492011064 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 642492011065 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 642492011066 motif II; other site 642492011067 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 642492011068 Glycosyl hydrolase family 59; Region: Glyco_hydro_59; pfam02057 642492011069 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 642492011070 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492011071 putative sugar binding sites [chemical binding]; other site 642492011072 Q-X-W motif; other site 642492011073 CBD_II domain; Region: CBD_II; smart00637 642492011074 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 642492011075 substrate binding site [chemical binding]; other site 642492011076 active site 642492011077 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 642492011078 metal binding site [ion binding]; metal-binding site 642492011079 ligand binding site [chemical binding]; other site 642492011080 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 642492011081 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492011082 putative sugar binding sites [chemical binding]; other site 642492011083 Q-X-W motif; other site 642492011084 CBD_II domain; Region: CBD_II; smart00637 642492011085 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492011086 MarR family; Region: MarR_2; pfam12802 642492011087 MarR family; Region: MarR_2; cl17246 642492011088 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492011089 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 642492011090 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 642492011091 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 642492011092 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492011093 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011094 Coenzyme A binding pocket [chemical binding]; other site 642492011095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011096 Coenzyme A binding pocket [chemical binding]; other site 642492011097 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 642492011098 aspartate racemase; Region: asp_race; TIGR00035 642492011099 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 642492011100 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 642492011101 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 642492011102 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 642492011103 Metal-binding active site; metal-binding site 642492011104 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 642492011105 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 642492011106 motif II; other site 642492011107 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 642492011108 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 642492011109 tetrameric interface [polypeptide binding]; other site 642492011110 activator binding site; other site 642492011111 NADP binding site [chemical binding]; other site 642492011112 substrate binding site [chemical binding]; other site 642492011113 catalytic residues [active] 642492011114 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 642492011115 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 642492011116 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 642492011117 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492011118 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492011119 Walker A/P-loop; other site 642492011120 ATP binding site [chemical binding]; other site 642492011121 Q-loop/lid; other site 642492011122 ABC transporter signature motif; other site 642492011123 Walker B; other site 642492011124 D-loop; other site 642492011125 H-loop/switch region; other site 642492011126 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 642492011127 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492011128 DNA binding residues [nucleotide binding] 642492011129 dimer interface [polypeptide binding]; other site 642492011130 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 642492011131 stage V sporulation protein B; Region: spore_V_B; TIGR02900 642492011132 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 642492011133 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 642492011134 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 642492011135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492011136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492011137 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 642492011138 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 642492011139 NAD(P) binding site [chemical binding]; other site 642492011140 LDH/MDH dimer interface [polypeptide binding]; other site 642492011141 substrate binding site [chemical binding]; other site 642492011142 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492011143 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 642492011144 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 642492011145 peptide synthase; Provisional; Region: PRK09274 642492011146 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 642492011147 acyl-activating enzyme (AAE) consensus motif; other site 642492011148 AMP binding site [chemical binding]; other site 642492011149 active site 642492011150 CoA binding site [chemical binding]; other site 642492011151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011152 Coenzyme A binding pocket [chemical binding]; other site 642492011153 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 642492011154 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 642492011155 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 642492011156 active site 642492011157 active site 642492011158 catalytic residues [active] 642492011159 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 642492011160 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 642492011161 putative sugar binding sites [chemical binding]; other site 642492011162 Q-X-W motif; other site 642492011163 S-layer homology domain; Region: SLH; pfam00395 642492011164 S-layer homology domain; Region: SLH; pfam00395 642492011165 S-layer homology domain; Region: SLH; pfam00395 642492011166 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 642492011167 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 642492011168 active site 642492011169 catalytic residues [active] 642492011170 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492011171 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492011172 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492011173 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492011174 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492011175 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 642492011176 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 642492011177 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 642492011178 active site 642492011179 active site 642492011180 catalytic residues [active] 642492011181 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 642492011182 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492011183 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 642492011184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492011185 dimer interface [polypeptide binding]; other site 642492011186 conserved gate region; other site 642492011187 putative PBP binding loops; other site 642492011188 ABC-ATPase subunit interface; other site 642492011189 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492011190 dimer interface [polypeptide binding]; other site 642492011191 conserved gate region; other site 642492011192 putative PBP binding loops; other site 642492011193 ABC-ATPase subunit interface; other site 642492011194 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 642492011195 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 642492011196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492011197 Histidine kinase; Region: His_kinase; pfam06580 642492011198 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 642492011199 ATP binding site [chemical binding]; other site 642492011200 Mg2+ binding site [ion binding]; other site 642492011201 G-X-G motif; other site 642492011202 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 642492011203 Response regulator receiver domain; Region: Response_reg; pfam00072 642492011204 active site 642492011205 phosphorylation site [posttranslational modification] 642492011206 intermolecular recognition site; other site 642492011207 dimerization interface [polypeptide binding]; other site 642492011208 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 642492011209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 642492011210 N-terminal-like domain of Paenibacillus sp. YM-1 Laminaribiose Phosphorylase and similar proteins; Region: GH94N_LBP_like; cd11749 642492011211 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 642492011212 N-terminal domain of cellodextrin phosphorylase (CDP) and similar proteins; Region: GH94N_CDP_like; cd11752 642492011213 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 642492011214 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492011215 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492011216 dimer interface [polypeptide binding]; other site 642492011217 putative CheW interface [polypeptide binding]; other site 642492011218 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 642492011219 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 642492011220 Uncharacterized conserved protein [Function unknown]; Region: COG3603 642492011221 Family description; Region: ACT_7; pfam13840 642492011222 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 642492011223 active site 642492011224 NTP binding site [chemical binding]; other site 642492011225 metal binding triad [ion binding]; metal-binding site 642492011226 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 642492011227 phosphoenolpyruvate synthase; Validated; Region: PRK06241 642492011228 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 642492011229 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 642492011230 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 642492011231 active site 642492011232 motif I; other site 642492011233 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 642492011234 motif II; other site 642492011235 Condensation domain; Region: Condensation; pfam00668 642492011236 prenyltransferase; Provisional; Region: ubiA; PRK13592 642492011237 UbiA prenyltransferase family; Region: UbiA; pfam01040 642492011238 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 642492011239 sequence-specific DNA binding site [nucleotide binding]; other site 642492011240 salt bridge; other site 642492011241 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 642492011242 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 642492011243 Coenzyme A binding pocket [chemical binding]; other site 642492011244 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 642492011245 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492011246 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 642492011247 active site 642492011248 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011249 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492011250 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 642492011251 Walker A/P-loop; other site 642492011252 ATP binding site [chemical binding]; other site 642492011253 Q-loop/lid; other site 642492011254 ABC transporter signature motif; other site 642492011255 Walker B; other site 642492011256 D-loop; other site 642492011257 H-loop/switch region; other site 642492011258 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011259 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492011260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011261 Walker A/P-loop; other site 642492011262 ATP binding site [chemical binding]; other site 642492011263 Q-loop/lid; other site 642492011264 ABC transporter signature motif; other site 642492011265 Walker B; other site 642492011266 D-loop; other site 642492011267 H-loop/switch region; other site 642492011268 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 642492011269 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492011270 DNA binding residues [nucleotide binding] 642492011271 dimer interface [polypeptide binding]; other site 642492011272 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 642492011273 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 642492011274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011275 Walker A/P-loop; other site 642492011276 ATP binding site [chemical binding]; other site 642492011277 Q-loop/lid; other site 642492011278 ABC transporter signature motif; other site 642492011279 Walker B; other site 642492011280 D-loop; other site 642492011281 H-loop/switch region; other site 642492011282 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 642492011283 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492011284 TM-ABC transporter signature motif; other site 642492011285 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 642492011286 zinc binding site [ion binding]; other site 642492011287 putative ligand binding site [chemical binding]; other site 642492011288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 642492011289 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492011290 Helix-turn-helix domain; Region: HTH_28; pfam13518 642492011291 Winged helix-turn helix; Region: HTH_29; pfam13551 642492011292 putative transposase OrfB; Reviewed; Region: PHA02517 642492011293 HTH-like domain; Region: HTH_21; pfam13276 642492011294 Integrase core domain; Region: rve; pfam00665 642492011295 Integrase core domain; Region: rve_3; cl15866 642492011296 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 642492011297 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 642492011298 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 642492011299 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 642492011300 nudix motif; other site 642492011301 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 642492011302 Peptidase family M28; Region: Peptidase_M28; pfam04389 642492011303 metal binding site [ion binding]; metal-binding site 642492011304 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 642492011305 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 642492011306 salt bridge; other site 642492011307 non-specific DNA binding site [nucleotide binding]; other site 642492011308 sequence-specific DNA binding site [nucleotide binding]; other site 642492011309 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 642492011310 Predicted transcriptional regulator [Transcription]; Region: COG3655 642492011311 non-specific DNA binding site [nucleotide binding]; other site 642492011312 salt bridge; other site 642492011313 sequence-specific DNA binding site [nucleotide binding]; other site 642492011314 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 642492011315 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 642492011316 putative NAD(P) binding site [chemical binding]; other site 642492011317 active site 642492011318 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 642492011319 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 642492011320 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 642492011321 NAD(P) binding site [chemical binding]; other site 642492011322 catalytic residues [active] 642492011323 peroxiredoxin; Region: AhpC; TIGR03137 642492011324 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 642492011325 dimer interface [polypeptide binding]; other site 642492011326 decamer (pentamer of dimers) interface [polypeptide binding]; other site 642492011327 catalytic triad [active] 642492011328 peroxidatic and resolving cysteines [active] 642492011329 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 642492011330 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 642492011331 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 642492011332 catalytic residue [active] 642492011333 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 642492011334 catalytic residues [active] 642492011335 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 642492011336 conserved cys residue [active] 642492011337 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 642492011338 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 642492011339 Metal-binding active site; metal-binding site 642492011340 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 642492011341 active site 642492011342 catalytic site [active] 642492011343 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 642492011344 MOZ/SAS family; Region: MOZ_SAS; pfam01853 642492011345 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 642492011346 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 642492011347 substrate binding pocket [chemical binding]; other site 642492011348 membrane-bound complex binding site; other site 642492011349 hinge residues; other site 642492011350 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 642492011351 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 642492011352 Walker A/P-loop; other site 642492011353 ATP binding site [chemical binding]; other site 642492011354 Q-loop/lid; other site 642492011355 ABC transporter signature motif; other site 642492011356 Walker B; other site 642492011357 D-loop; other site 642492011358 H-loop/switch region; other site 642492011359 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 642492011360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492011361 Flavin Reductases; Region: FlaRed; cl00801 642492011362 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 642492011363 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 642492011364 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 642492011365 motif II; other site 642492011366 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 642492011367 FtsX-like permease family; Region: FtsX; pfam02687 642492011368 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 642492011369 FtsX-like permease family; Region: FtsX; pfam02687 642492011370 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492011371 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 642492011372 Walker A/P-loop; other site 642492011373 ATP binding site [chemical binding]; other site 642492011374 Q-loop/lid; other site 642492011375 ABC transporter signature motif; other site 642492011376 Walker B; other site 642492011377 D-loop; other site 642492011378 H-loop/switch region; other site 642492011379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492011380 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 642492011381 dimer interface [polypeptide binding]; other site 642492011382 phosphorylation site [posttranslational modification] 642492011383 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 642492011384 ATP binding site [chemical binding]; other site 642492011385 Mg2+ binding site [ion binding]; other site 642492011386 G-X-G motif; other site 642492011387 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 642492011388 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 642492011389 active site 642492011390 phosphorylation site [posttranslational modification] 642492011391 intermolecular recognition site; other site 642492011392 dimerization interface [polypeptide binding]; other site 642492011393 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 642492011394 DNA binding site [nucleotide binding] 642492011395 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 642492011396 active site 642492011397 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 642492011398 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 642492011399 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 642492011400 Walker A/P-loop; other site 642492011401 ATP binding site [chemical binding]; other site 642492011402 Q-loop/lid; other site 642492011403 ABC transporter signature motif; other site 642492011404 Walker B; other site 642492011405 D-loop; other site 642492011406 H-loop/switch region; other site 642492011407 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 642492011408 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011409 Protein of unknown function (DUF454); Region: DUF454; cl01063 642492011410 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492011411 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 642492011412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011413 Walker A/P-loop; other site 642492011414 ATP binding site [chemical binding]; other site 642492011415 Q-loop/lid; other site 642492011416 ABC transporter signature motif; other site 642492011417 Walker B; other site 642492011418 D-loop; other site 642492011419 H-loop/switch region; other site 642492011420 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011421 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492011422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011423 Walker A/P-loop; other site 642492011424 ATP binding site [chemical binding]; other site 642492011425 Q-loop/lid; other site 642492011426 ABC transporter signature motif; other site 642492011427 Walker B; other site 642492011428 D-loop; other site 642492011429 H-loop/switch region; other site 642492011430 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 642492011431 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 642492011432 Penicillinase repressor; Region: Pencillinase_R; pfam03965 642492011433 phytoene desaturase; Region: crtI_fam; TIGR02734 642492011434 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 642492011435 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011436 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 642492011437 DNA binding residues [nucleotide binding] 642492011438 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 642492011439 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 642492011440 DNA binding residues [nucleotide binding] 642492011441 drug binding residues [chemical binding]; other site 642492011442 dimer interface [polypeptide binding]; other site 642492011443 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 642492011444 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 642492011445 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 642492011446 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 642492011447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011448 Walker A/P-loop; other site 642492011449 ATP binding site [chemical binding]; other site 642492011450 Q-loop/lid; other site 642492011451 ABC transporter signature motif; other site 642492011452 Walker B; other site 642492011453 D-loop; other site 642492011454 H-loop/switch region; other site 642492011455 Predicted acetyltransferase [General function prediction only]; Region: COG3393 642492011456 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 642492011457 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 642492011458 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492011459 FeS/SAM binding site; other site 642492011460 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 642492011461 Winged helix-turn helix; Region: HTH_29; pfam13551 642492011462 Homeodomain-like domain; Region: HTH_23; pfam13384 642492011463 Homeodomain-like domain; Region: HTH_32; pfam13565 642492011464 Winged helix-turn helix; Region: HTH_33; pfam13592 642492011465 DDE superfamily endonuclease; Region: DDE_3; pfam13358 642492011466 Isochorismatase family; Region: Isochorismatase; pfam00857 642492011467 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 642492011468 catalytic triad [active] 642492011469 conserved cis-peptide bond; other site 642492011470 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 642492011471 catalytic residues [active] 642492011472 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011473 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492011474 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 642492011475 Walker A/P-loop; other site 642492011476 ATP binding site [chemical binding]; other site 642492011477 Q-loop/lid; other site 642492011478 ABC transporter signature motif; other site 642492011479 Walker B; other site 642492011480 D-loop; other site 642492011481 H-loop/switch region; other site 642492011482 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011483 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492011484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011485 Walker A/P-loop; other site 642492011486 ATP binding site [chemical binding]; other site 642492011487 Q-loop/lid; other site 642492011488 ABC transporter signature motif; other site 642492011489 Walker B; other site 642492011490 D-loop; other site 642492011491 H-loop/switch region; other site 642492011492 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 642492011493 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 642492011494 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 642492011495 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 642492011496 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 642492011497 putative hexamer interface [polypeptide binding]; other site 642492011498 putative hexagonal pore; other site 642492011499 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 642492011500 putative hexamer interface [polypeptide binding]; other site 642492011501 putative hexagonal pore; other site 642492011502 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 642492011503 Hexamer/Pentamer interface [polypeptide binding]; other site 642492011504 central pore; other site 642492011505 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 642492011506 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 642492011507 Propanediol utilisation protein PduL; Region: PduL; pfam06130 642492011508 Propanediol utilisation protein PduL; Region: PduL; pfam06130 642492011509 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 642492011510 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 642492011511 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 642492011512 Hexamer interface [polypeptide binding]; other site 642492011513 Putative hexagonal pore residue; other site 642492011514 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 642492011515 putative catalytic cysteine [active] 642492011516 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 642492011517 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 642492011518 Hexamer interface [polypeptide binding]; other site 642492011519 Hexagonal pore residue; other site 642492011520 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 642492011521 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 642492011522 putative hexamer interface [polypeptide binding]; other site 642492011523 putative hexagonal pore; other site 642492011524 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 642492011525 putative hexamer interface [polypeptide binding]; other site 642492011526 putative hexagonal pore; other site 642492011527 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 642492011528 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 642492011529 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 642492011530 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 642492011531 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 642492011532 G1 box; other site 642492011533 GTP/Mg2+ binding site [chemical binding]; other site 642492011534 G2 box; other site 642492011535 Switch I region; other site 642492011536 G3 box; other site 642492011537 Switch II region; other site 642492011538 G4 box; other site 642492011539 G5 box; other site 642492011540 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 642492011541 putative hexamer interface [polypeptide binding]; other site 642492011542 putative hexagonal pore; other site 642492011543 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 642492011544 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 642492011545 putative active site [active] 642492011546 metal binding site [ion binding]; metal-binding site 642492011547 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 642492011548 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 642492011549 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 642492011550 active site 642492011551 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 642492011552 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 642492011553 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 642492011554 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 642492011555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492011556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492011557 WHG domain; Region: WHG; pfam13305 642492011558 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011560 Walker A/P-loop; other site 642492011561 ATP binding site [chemical binding]; other site 642492011562 Q-loop/lid; other site 642492011563 ABC transporter signature motif; other site 642492011564 Walker B; other site 642492011565 D-loop; other site 642492011566 H-loop/switch region; other site 642492011567 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011568 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 642492011569 Walker A/P-loop; other site 642492011570 ATP binding site [chemical binding]; other site 642492011571 Q-loop/lid; other site 642492011572 ABC transporter signature motif; other site 642492011573 Walker B; other site 642492011574 D-loop; other site 642492011575 H-loop/switch region; other site 642492011576 Beta-lactamase; Region: Beta-lactamase; pfam00144 642492011577 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 642492011578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011579 Walker A/P-loop; other site 642492011580 ATP binding site [chemical binding]; other site 642492011581 Q-loop/lid; other site 642492011582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011583 ABC transporter signature motif; other site 642492011584 Walker B; other site 642492011585 D-loop; other site 642492011586 H-loop/switch region; other site 642492011587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011588 Walker A/P-loop; other site 642492011589 ATP binding site [chemical binding]; other site 642492011590 Q-loop/lid; other site 642492011591 ABC transporter signature motif; other site 642492011592 Walker B; other site 642492011593 D-loop; other site 642492011594 H-loop/switch region; other site 642492011595 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 642492011596 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 642492011597 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 642492011598 dimer interface [polypeptide binding]; other site 642492011599 phosphorylation site [posttranslational modification] 642492011600 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 642492011601 ATP binding site [chemical binding]; other site 642492011602 Mg2+ binding site [ion binding]; other site 642492011603 G-X-G motif; other site 642492011604 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 642492011605 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 642492011606 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 642492011607 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 642492011608 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492011609 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 642492011610 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 642492011611 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492011612 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492011613 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 642492011614 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 642492011615 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 642492011616 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 642492011617 Cache domain; Region: Cache_1; pfam02743 642492011618 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 642492011619 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 642492011620 dimerization interface [polypeptide binding]; other site 642492011621 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492011622 dimer interface [polypeptide binding]; other site 642492011623 putative CheW interface [polypeptide binding]; other site 642492011624 H+ Antiporter protein; Region: 2A0121; TIGR00900 642492011625 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 642492011626 putative substrate translocation pore; other site 642492011627 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 642492011628 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 642492011629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011630 Walker A/P-loop; other site 642492011631 ATP binding site [chemical binding]; other site 642492011632 Q-loop/lid; other site 642492011633 ABC transporter signature motif; other site 642492011634 Walker B; other site 642492011635 D-loop; other site 642492011636 H-loop/switch region; other site 642492011637 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 642492011638 putative DNA binding site [nucleotide binding]; other site 642492011639 putative Zn2+ binding site [ion binding]; other site 642492011640 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 642492011641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 642492011642 Walker A/P-loop; other site 642492011643 ATP binding site [chemical binding]; other site 642492011644 Q-loop/lid; other site 642492011645 ABC transporter signature motif; other site 642492011646 Walker B; other site 642492011647 D-loop; other site 642492011648 H-loop/switch region; other site 642492011649 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 642492011650 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 642492011651 TM-ABC transporter signature motif; other site 642492011652 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 642492011653 zinc binding site [ion binding]; other site 642492011654 putative ligand binding site [chemical binding]; other site 642492011655 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 642492011656 Na binding site [ion binding]; other site 642492011657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 642492011658 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 642492011659 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 642492011660 active site 642492011661 substrate binding site [chemical binding]; other site 642492011662 metal binding site [ion binding]; metal-binding site 642492011663 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 642492011664 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 642492011665 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 642492011666 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 642492011667 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 642492011668 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 642492011669 YabG peptidase U57; Region: Peptidase_U57; cl05250 642492011670 PEGA domain; Region: PEGA; pfam08308 642492011671 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 642492011672 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 642492011673 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492011674 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 642492011675 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 642492011676 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 642492011677 active site 642492011678 NTP binding site [chemical binding]; other site 642492011679 metal binding triad [ion binding]; metal-binding site 642492011680 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 642492011681 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 642492011682 Zn2+ binding site [ion binding]; other site 642492011683 Mg2+ binding site [ion binding]; other site 642492011684 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 642492011685 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 642492011686 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 642492011687 Walker A/P-loop; other site 642492011688 ATP binding site [chemical binding]; other site 642492011689 Q-loop/lid; other site 642492011690 ABC transporter signature motif; other site 642492011691 Walker B; other site 642492011692 D-loop; other site 642492011693 H-loop/switch region; other site 642492011694 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492011695 dimer interface [polypeptide binding]; other site 642492011696 conserved gate region; other site 642492011697 putative PBP binding loops; other site 642492011698 ABC-ATPase subunit interface; other site 642492011699 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 642492011700 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 642492011701 substrate binding pocket [chemical binding]; other site 642492011702 membrane-bound complex binding site; other site 642492011703 hinge residues; other site 642492011704 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 642492011705 Hemerythrin-like domain; Region: Hr-like; cd12108 642492011706 Fe binding site [ion binding]; other site 642492011707 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 642492011708 RNA/DNA hybrid binding site [nucleotide binding]; other site 642492011709 active site 642492011710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011711 Coenzyme A binding pocket [chemical binding]; other site 642492011712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492011713 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 642492011714 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 642492011715 homodimer interface [polypeptide binding]; other site 642492011716 substrate-cofactor binding pocket; other site 642492011717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011718 catalytic residue [active] 642492011719 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 642492011720 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 642492011721 active site 642492011722 metal binding site [ion binding]; metal-binding site 642492011723 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 642492011724 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 642492011725 putative RNA binding site [nucleotide binding]; other site 642492011726 Transglutaminase/protease-like homologues; Region: TGc; smart00460 642492011727 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 642492011728 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 642492011729 TPP-binding site [chemical binding]; other site 642492011730 putative dimer interface [polypeptide binding]; other site 642492011731 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: vorA; PRK08366 642492011732 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 642492011733 dimer interface [polypeptide binding]; other site 642492011734 PYR/PP interface [polypeptide binding]; other site 642492011735 TPP binding site [chemical binding]; other site 642492011736 substrate binding site [chemical binding]; other site 642492011737 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 642492011738 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 642492011739 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 642492011740 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 642492011741 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 642492011742 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 642492011743 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 642492011744 acyl-activating enzyme (AAE) consensus motif; other site 642492011745 AMP binding site [chemical binding]; other site 642492011746 active site 642492011747 CoA binding site [chemical binding]; other site 642492011748 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 642492011749 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 642492011750 homodimer interface [polypeptide binding]; other site 642492011751 substrate-cofactor binding pocket; other site 642492011752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011753 catalytic residue [active] 642492011754 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 642492011755 FAD binding domain; Region: FAD_binding_4; pfam01565 642492011756 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 642492011757 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 642492011758 dimer interface [polypeptide binding]; other site 642492011759 conserved gate region; other site 642492011760 putative PBP binding loops; other site 642492011761 ABC-ATPase subunit interface; other site 642492011762 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 642492011763 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 642492011764 Walker A/P-loop; other site 642492011765 ATP binding site [chemical binding]; other site 642492011766 Q-loop/lid; other site 642492011767 ABC transporter signature motif; other site 642492011768 Walker B; other site 642492011769 D-loop; other site 642492011770 H-loop/switch region; other site 642492011771 NIL domain; Region: NIL; pfam09383 642492011772 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 642492011773 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 642492011774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011775 homodimer interface [polypeptide binding]; other site 642492011776 catalytic residue [active] 642492011777 cystathionine beta-lyase; Provisional; Region: PRK07671 642492011778 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 642492011779 homodimer interface [polypeptide binding]; other site 642492011780 substrate-cofactor binding pocket; other site 642492011781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011782 catalytic residue [active] 642492011783 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 642492011784 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 642492011785 dimer interface [polypeptide binding]; other site 642492011786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492011787 catalytic residue [active] 642492011788 Methyltransferase domain; Region: Methyltransf_23; pfam13489 642492011789 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 642492011790 S-adenosylmethionine binding site [chemical binding]; other site 642492011791 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 642492011792 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 642492011793 Repair protein; Region: Repair_PSII; pfam04536 642492011794 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 642492011795 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 642492011796 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 642492011797 P loop; other site 642492011798 Nucleotide binding site [chemical binding]; other site 642492011799 DTAP/Switch II; other site 642492011800 Switch I; other site 642492011801 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 642492011802 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 642492011803 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 642492011804 P loop; other site 642492011805 Nucleotide binding site [chemical binding]; other site 642492011806 DTAP/Switch II; other site 642492011807 Switch I; other site 642492011808 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 642492011809 MarR family; Region: MarR; pfam01047 642492011810 MarR family; Region: MarR_2; cl17246 642492011811 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 642492011812 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 642492011813 ligand binding site [chemical binding]; other site 642492011814 flexible hinge region; other site 642492011815 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 642492011816 classical (c) SDRs; Region: SDR_c; cd05233 642492011817 NAD(P) binding site [chemical binding]; other site 642492011818 active site 642492011819 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 642492011820 EamA-like transporter family; Region: EamA; pfam00892 642492011821 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 642492011822 hypothetical protein; Reviewed; Region: PRK09588 642492011823 WYL domain; Region: WYL; pfam13280 642492011824 WYL domain; Region: WYL; pfam13280 642492011825 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 642492011826 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 642492011827 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 642492011828 Domain of unknown function (DUF2828); Region: DUF2828; pfam11443 642492011829 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 642492011830 metal ion-dependent adhesion site (MIDAS); other site 642492011831 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 642492011832 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492011833 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492011834 Walker A/P-loop; other site 642492011835 ATP binding site [chemical binding]; other site 642492011836 Q-loop/lid; other site 642492011837 ABC transporter signature motif; other site 642492011838 Walker B; other site 642492011839 D-loop; other site 642492011840 H-loop/switch region; other site 642492011841 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 642492011842 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 642492011843 RNA polymerase factor sigma-70; Validated; Region: PRK06811 642492011844 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011845 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 642492011846 DNA binding residues [nucleotide binding] 642492011847 Putative zinc-finger; Region: zf-HC2; pfam13490 642492011848 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 642492011849 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 642492011850 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 642492011851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 642492011852 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 642492011853 DNA binding residues [nucleotide binding] 642492011854 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 642492011855 Transcriptional regulator [Transcription]; Region: LytR; COG1316 642492011856 Penicillinase repressor; Region: Pencillinase_R; pfam03965 642492011857 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 642492011858 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 642492011859 non-specific DNA binding site [nucleotide binding]; other site 642492011860 salt bridge; other site 642492011861 sequence-specific DNA binding site [nucleotide binding]; other site 642492011862 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 642492011863 AzlC protein; Region: AzlC; cl00570 642492011864 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 642492011865 Part of AAA domain; Region: AAA_19; pfam13245 642492011866 Family description; Region: UvrD_C_2; pfam13538 642492011867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 642492011868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 642492011869 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 642492011870 dimerization interface [polypeptide binding]; other site 642492011871 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 642492011872 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 642492011873 HAMP domain; Region: HAMP; pfam00672 642492011874 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 642492011875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 642492011876 dimer interface [polypeptide binding]; other site 642492011877 putative CheW interface [polypeptide binding]; other site 642492011878 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 642492011879 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011880 Coenzyme A binding pocket [chemical binding]; other site 642492011881 GTPase RsgA; Reviewed; Region: PRK01889 642492011882 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 642492011883 RNA binding site [nucleotide binding]; other site 642492011884 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 642492011885 GTPase/Zn-binding domain interface [polypeptide binding]; other site 642492011886 GTP/Mg2+ binding site [chemical binding]; other site 642492011887 G4 box; other site 642492011888 G5 box; other site 642492011889 G1 box; other site 642492011890 Switch I region; other site 642492011891 G2 box; other site 642492011892 G3 box; other site 642492011893 Switch II region; other site 642492011894 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 642492011895 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492011896 ABC transporter; Region: ABC_tran_2; pfam12848 642492011897 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 642492011898 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 642492011899 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 642492011900 nudix motif; other site 642492011901 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 642492011902 nucleotide binding site/active site [active] 642492011903 HIT family signature motif; other site 642492011904 catalytic residue [active] 642492011905 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 642492011906 Radical SAM superfamily; Region: Radical_SAM; pfam04055 642492011907 FeS/SAM binding site; other site 642492011908 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 642492011909 active site 642492011910 dimer interface [polypeptide binding]; other site 642492011911 metal binding site [ion binding]; metal-binding site 642492011912 PAS domain; Region: PAS_9; pfam13426 642492011913 PAS fold; Region: PAS_4; pfam08448 642492011914 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 642492011915 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 642492011916 putative active site [active] 642492011917 heme pocket [chemical binding]; other site 642492011918 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 642492011919 dimer interface [polypeptide binding]; other site 642492011920 phosphorylation site [posttranslational modification] 642492011921 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 642492011922 ATP binding site [chemical binding]; other site 642492011923 Mg2+ binding site [ion binding]; other site 642492011924 G-X-G motif; other site 642492011925 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 642492011926 Clp amino terminal domain; Region: Clp_N; pfam02861 642492011927 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 642492011928 Walker A motif; other site 642492011929 ATP binding site [chemical binding]; other site 642492011930 Walker B motif; other site 642492011931 arginine finger; other site 642492011932 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 642492011933 Walker A motif; other site 642492011934 ATP binding site [chemical binding]; other site 642492011935 Walker B motif; other site 642492011936 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 642492011937 Uncharacterized conserved protein [Function unknown]; Region: COG2127 642492011938 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 642492011939 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 642492011940 DNA binding residues [nucleotide binding] 642492011941 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 642492011942 Uncharacterized conserved protein [Function unknown]; Region: COG1284 642492011943 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 642492011944 BioY family; Region: BioY; pfam02632 642492011945 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 642492011946 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 642492011947 Coenzyme A binding pocket [chemical binding]; other site 642492011948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 642492011949 maltose O-acetyltransferase; Provisional; Region: PRK10092 642492011950 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 642492011951 active site 642492011952 substrate binding site [chemical binding]; other site 642492011953 trimer interface [polypeptide binding]; other site 642492011954 CoA binding site [chemical binding]; other site 642492011955 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 642492011956 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 642492011957 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 642492011958 active site 642492011959 Zn binding site [ion binding]; other site 642492011960 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 642492011961 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 642492011962 iron-sulfur cluster [ion binding]; other site 642492011963 [2Fe-2S] cluster binding site [ion binding]; other site 642492011964 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 642492011965 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 642492011966 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 642492011967 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 642492011968 active site 642492011969 nucleophile elbow; other site 642492011970 prolyl-tRNA synthetase; Provisional; Region: PRK09194 642492011971 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 642492011972 motif 1; other site 642492011973 dimer interface [polypeptide binding]; other site 642492011974 active site 642492011975 motif 2; other site 642492011976 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 642492011977 putative deacylase active site [active] 642492011978 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 642492011979 active site 642492011980 motif 3; other site 642492011981 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 642492011982 anticodon binding site; other site 642492011983 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 642492011984 Transcriptional regulator [Transcription]; Region: IclR; COG1414 642492011985 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 642492011986 Bacterial transcriptional regulator; Region: IclR; pfam01614 642492011987 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 642492011988 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 642492011989 NADP binding site [chemical binding]; other site 642492011990 homodimer interface [polypeptide binding]; other site 642492011991 active site 642492011992 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 642492011993 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 642492011994 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 642492011995 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 642492011996 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 642492011997 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 642492011998 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 642492011999 active site 642492012000 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 642492012001 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 642492012002 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 642492012003 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 642492012004 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 642492012005 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 642492012006 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 642492012007 Dimer interface [polypeptide binding]; other site 642492012008 anticodon binding site; other site 642492012009 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 642492012010 homodimer interface [polypeptide binding]; other site 642492012011 motif 1; other site 642492012012 motif 2; other site 642492012013 active site 642492012014 motif 3; other site 642492012015 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 642492012016 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 642492012017 GatB domain; Region: GatB_Yqey; smart00845 642492012018 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 642492012019 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 642492012020 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 642492012021 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 642492012022 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 642492012023 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 642492012024 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 642492012025 active site 642492012026 dimer interface [polypeptide binding]; other site 642492012027 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 642492012028 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 642492012029 active site 642492012030 FMN binding site [chemical binding]; other site 642492012031 substrate binding site [chemical binding]; other site 642492012032 3Fe-4S cluster binding site [ion binding]; other site 642492012033 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 642492012034 domain interface; other site 642492012035 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 642492012036 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 642492012037 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 642492012038 ANTAR domain; Region: ANTAR; pfam03861 642492012039 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 642492012040 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 642492012041 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 642492012042 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 642492012043 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 642492012044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 642492012045 homodimer interface [polypeptide binding]; other site 642492012046 catalytic residue [active] 642492012047 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 642492012048 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 642492012049 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 642492012050 Walker A/P-loop; other site 642492012051 ATP binding site [chemical binding]; other site 642492012052 Q-loop/lid; other site 642492012053 ABC transporter signature motif; other site 642492012054 Walker B; other site 642492012055 D-loop; other site 642492012056 H-loop/switch region; other site 642492012057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 642492012058 DNA-binding site [nucleotide binding]; DNA binding site 642492012059 Winged helix-turn helix; Region: HTH_29; pfam13551 642492012060 Homeodomain-like domain; Region: HTH_23; pfam13384 642492012061 Homeodomain-like domain; Region: HTH_32; pfam13565 642492012062 Winged helix-turn helix; Region: HTH_33; pfam13592 642492012063 DDE superfamily endonuclease; Region: DDE_3; pfam13358 642492012064 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 642492012065 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 642492012066 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 642492012067 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 642492012068 active site 642492012069 metal binding site [ion binding]; metal-binding site 642492012070 Predicted membrane protein [Function unknown]; Region: COG2246 642492012071 GtrA-like protein; Region: GtrA; pfam04138 642492012072 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 642492012073 ParB-like nuclease domain; Region: ParB; smart00470 642492012074 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 642492012075 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 642492012076 P-loop; other site 642492012077 Magnesium ion binding site [ion binding]; other site 642492012078 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 642492012079 Magnesium ion binding site [ion binding]; other site 642492012080 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 642492012081 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 642492012082 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 642492012083 active site 642492012084 HIGH motif; other site 642492012085 KMSK motif region; other site 642492012086 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 642492012087 tRNA binding surface [nucleotide binding]; other site 642492012088 anticodon binding site; other site 642492012089 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 642492012090 ParB-like nuclease domain; Region: ParB; smart00470 642492012091 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 642492012092 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 642492012093 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 642492012094 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 642492012095 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 642492012096 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 642492012097 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 642492012098 trmE is a tRNA modification GTPase; Region: trmE; cd04164 642492012099 G1 box; other site 642492012100 GTP/Mg2+ binding site [chemical binding]; other site 642492012101 Switch I region; other site 642492012102 G2 box; other site 642492012103 Switch II region; other site 642492012104 G3 box; other site 642492012105 G4 box; other site 642492012106 G5 box; other site 642492012107 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 642492012108 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 642492012109 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 642492012110 G-X-X-G motif; other site 642492012111 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 642492012112 RxxxH motif; other site 642492012113 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 642492012114 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 642492012115 Haemolytic domain; Region: Haemolytic; pfam01809 642492012116 ribonuclease P; Reviewed; Region: rnpA; PRK00499 642492012117 Ribosomal protein L34; Region: Ribosomal_L34; cl00370