-- dump date 20140619_134401 -- class Genbank::misc_feature -- table misc_feature_note -- id note 882096000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 882096000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 882096000003 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 882096000004 Walker A motif; other site 882096000005 ATP binding site [chemical binding]; other site 882096000006 Walker B motif; other site 882096000007 arginine finger; other site 882096000008 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 882096000009 DnaA box-binding interface [nucleotide binding]; other site 882096000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 882096000011 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 882096000012 putative DNA binding surface [nucleotide binding]; other site 882096000013 dimer interface [polypeptide binding]; other site 882096000014 beta-clamp/clamp loader binding surface; other site 882096000015 beta-clamp/translesion DNA polymerase binding surface; other site 882096000016 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 882096000017 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 882096000018 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 882096000019 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 882096000020 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 882096000021 Walker A/P-loop; other site 882096000022 ATP binding site [chemical binding]; other site 882096000023 Q-loop/lid; other site 882096000024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096000025 ABC transporter signature motif; other site 882096000026 Walker B; other site 882096000027 D-loop; other site 882096000028 H-loop/switch region; other site 882096000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 882096000030 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 882096000031 Mg2+ binding site [ion binding]; other site 882096000032 G-X-G motif; other site 882096000033 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 882096000034 anchoring element; other site 882096000035 dimer interface [polypeptide binding]; other site 882096000036 ATP binding site [chemical binding]; other site 882096000037 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 882096000038 active site 882096000039 putative metal-binding site [ion binding]; other site 882096000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 882096000041 DNA gyrase subunit A; Validated; Region: PRK05560 882096000042 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 882096000043 CAP-like domain; other site 882096000044 active site 882096000045 primary dimer interface [polypeptide binding]; other site 882096000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882096000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882096000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882096000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882096000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882096000051 cardiolipin synthetase; Reviewed; Region: PRK12452 882096000052 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 882096000053 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 882096000054 putative active site [active] 882096000055 catalytic site [active] 882096000056 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 882096000057 putative active site [active] 882096000058 catalytic site [active] 882096000059 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882096000060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096000061 Coenzyme A binding pocket [chemical binding]; other site 882096000062 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 882096000063 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 882096000064 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 882096000065 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 882096000066 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 882096000067 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 882096000068 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 882096000069 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 882096000070 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 882096000071 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 882096000072 D-pathway; other site 882096000073 Putative ubiquinol binding site [chemical binding]; other site 882096000074 Low-spin heme (heme b) binding site [chemical binding]; other site 882096000075 Putative water exit pathway; other site 882096000076 Binuclear center (heme o3/CuB) [ion binding]; other site 882096000077 K-pathway; other site 882096000078 Putative proton exit pathway; other site 882096000079 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 882096000080 Subunit I/III interface [polypeptide binding]; other site 882096000081 Subunit III/IV interface [polypeptide binding]; other site 882096000082 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 882096000083 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 882096000084 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 882096000085 putative active site [active] 882096000086 putative metal binding site [ion binding]; other site 882096000087 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 882096000088 beta-galactosidase; Region: BGL; TIGR03356 882096000089 Bacterial SH3 domain; Region: SH3_3; pfam08239 882096000090 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 882096000091 putative active site [active] 882096000092 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096000093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096000094 DNA-binding site [nucleotide binding]; DNA binding site 882096000095 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 882096000096 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 882096000097 active site 882096000098 active pocket/dimerization site; other site 882096000099 phosphorylation site [posttranslational modification] 882096000100 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 882096000101 active site 882096000102 phosphorylation site [posttranslational modification] 882096000103 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 882096000104 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 882096000105 hypothetical protein; Provisional; Region: PRK02947 882096000106 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 882096000107 putative active site [active] 882096000108 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 882096000109 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 882096000110 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 882096000111 active site turn [active] 882096000112 phosphorylation site [posttranslational modification] 882096000113 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 882096000114 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 882096000115 HPr interaction site; other site 882096000116 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882096000117 active site 882096000118 phosphorylation site [posttranslational modification] 882096000119 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 882096000120 putative dimer interface [polypeptide binding]; other site 882096000121 catalytic triad [active] 882096000122 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096000123 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 882096000124 active site 882096000125 motif I; other site 882096000126 motif II; other site 882096000127 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 882096000128 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096000129 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096000130 DNA binding site [nucleotide binding] 882096000131 domain linker motif; other site 882096000132 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 882096000133 dimerization interface [polypeptide binding]; other site 882096000134 putative ligand binding site [chemical binding]; other site 882096000135 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096000136 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096000137 nucleotide binding site [chemical binding]; other site 882096000138 Butyrate kinase [Energy production and conversion]; Region: COG3426 882096000139 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 882096000140 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 882096000141 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096000142 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096000143 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882096000144 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 882096000145 dimer interface [polypeptide binding]; other site 882096000146 active site 882096000147 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 882096000148 dimer interface [polypeptide binding]; other site 882096000149 active site 882096000150 putrescine carbamoyltransferase; Provisional; Region: PRK02255 882096000151 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882096000152 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882096000153 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 882096000154 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 882096000155 agmatine deiminase; Provisional; Region: PRK13551 882096000156 agmatine deiminase; Region: agmatine_aguA; TIGR03380 882096000157 carbamate kinase; Reviewed; Region: PRK12686 882096000158 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 882096000159 putative substrate binding site [chemical binding]; other site 882096000160 nucleotide binding site [chemical binding]; other site 882096000161 nucleotide binding site [chemical binding]; other site 882096000162 homodimer interface [polypeptide binding]; other site 882096000163 agmatine deiminase; Provisional; Region: PRK13551 882096000164 agmatine deiminase; Region: agmatine_aguA; TIGR03380 882096000165 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882096000166 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 882096000167 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 882096000168 putative active site [active] 882096000169 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882096000170 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 882096000171 arginine deiminase; Provisional; Region: PRK01388 882096000172 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 882096000173 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 882096000174 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 882096000175 dimer interface [polypeptide binding]; other site 882096000176 ssDNA binding site [nucleotide binding]; other site 882096000177 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096000178 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 882096000179 Predicted membrane protein [Function unknown]; Region: COG3212 882096000180 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 882096000181 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 882096000182 putative accessory gene regulator protein; Provisional; Region: PRK01100 882096000183 Staphylococcal AgrD protein; Region: AgrD; cl05477 882096000184 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 882096000185 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 882096000186 ATP binding site [chemical binding]; other site 882096000187 Mg2+ binding site [ion binding]; other site 882096000188 G-X-G motif; other site 882096000189 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 882096000190 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 882096000191 active site 882096000192 phosphorylation site [posttranslational modification] 882096000193 intermolecular recognition site; other site 882096000194 LytTr DNA-binding domain; Region: LytTR; pfam04397 882096000195 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 882096000196 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 882096000197 DHH family; Region: DHH; pfam01368 882096000198 DHHA1 domain; Region: DHHA1; pfam02272 882096000199 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 882096000200 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 882096000201 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 882096000202 replicative DNA helicase; Provisional; Region: PRK05748 882096000203 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 882096000204 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 882096000205 Walker A motif; other site 882096000206 ATP binding site [chemical binding]; other site 882096000207 Walker B motif; other site 882096000208 DNA binding loops [nucleotide binding] 882096000209 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 882096000210 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 882096000211 GDP-binding site [chemical binding]; other site 882096000212 ACT binding site; other site 882096000213 IMP binding site; other site 882096000214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 882096000215 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 882096000216 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 882096000217 Predicted membrane protein [Function unknown]; Region: COG1511 882096000218 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 882096000219 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 882096000220 Uncharacterized small protein [Function unknown]; Region: COG5417 882096000221 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 882096000222 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 882096000223 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 882096000224 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 882096000225 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 882096000226 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 882096000227 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 882096000228 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 882096000229 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 882096000230 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 882096000231 tetramer interface [polypeptide binding]; other site 882096000232 active site 882096000233 Mg2+/Mn2+ binding site [ion binding]; other site 882096000234 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 882096000235 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 882096000236 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 882096000237 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 882096000238 DNA binding site [nucleotide binding] 882096000239 active site 882096000240 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 882096000241 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882096000242 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 882096000243 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 882096000244 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 882096000245 putative ligand binding site [chemical binding]; other site 882096000246 putative NAD binding site [chemical binding]; other site 882096000247 catalytic site [active] 882096000248 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 882096000249 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 882096000250 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 882096000251 DNA binding residues [nucleotide binding] 882096000252 putative dimer interface [polypeptide binding]; other site 882096000253 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 882096000254 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096000255 active site 882096000256 catalytic tetrad [active] 882096000257 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096000258 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882096000259 ATP synthase subunit C; Region: ATP-synt_C; cl00466 882096000260 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 882096000261 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 882096000262 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 882096000263 Walker A motif; other site 882096000264 ATP binding site [chemical binding]; other site 882096000265 Walker B motif; other site 882096000266 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882096000267 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 882096000268 core domain interface [polypeptide binding]; other site 882096000269 delta subunit interface [polypeptide binding]; other site 882096000270 epsilon subunit interface [polypeptide binding]; other site 882096000271 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 882096000272 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882096000273 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 882096000274 alpha subunit interaction interface [polypeptide binding]; other site 882096000275 Walker A motif; other site 882096000276 ATP binding site [chemical binding]; other site 882096000277 Walker B motif; other site 882096000278 inhibitor binding site; inhibition site 882096000279 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882096000280 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; pfam02823 882096000281 gamma subunit interface [polypeptide binding]; other site 882096000282 epsilon subunit interface [polypeptide binding]; other site 882096000283 LBP interface [polypeptide binding]; other site 882096000284 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096000285 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 882096000286 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 882096000287 active pocket/dimerization site; other site 882096000288 active site 882096000289 phosphorylation site [posttranslational modification] 882096000290 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 882096000291 active site 882096000292 phosphorylation site [posttranslational modification] 882096000293 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 882096000294 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 882096000295 Domain of unknown function (DUF956); Region: DUF956; pfam06115 882096000296 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 882096000297 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 882096000298 dimerization interface [polypeptide binding]; other site 882096000299 putative DNA binding site [nucleotide binding]; other site 882096000300 Uncharacterized conserved protein [Function unknown]; Region: COG1359 882096000301 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 882096000302 dimer interface [polypeptide binding]; other site 882096000303 FMN binding site [chemical binding]; other site 882096000304 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 882096000305 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 882096000306 active site 882096000307 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 882096000308 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 882096000309 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 882096000310 aromatic chitin/cellulose binding site residues [chemical binding]; other site 882096000311 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096000312 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096000313 nucleotide binding site [chemical binding]; other site 882096000314 butyrate kinase; Region: butyr_kinase; TIGR02707 882096000315 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096000316 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096000317 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 882096000318 Walker A/P-loop; other site 882096000319 ATP binding site [chemical binding]; other site 882096000320 Q-loop/lid; other site 882096000321 ABC transporter signature motif; other site 882096000322 Walker B; other site 882096000323 D-loop; other site 882096000324 H-loop/switch region; other site 882096000325 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096000326 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096000327 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 882096000328 Walker A/P-loop; other site 882096000329 ATP binding site [chemical binding]; other site 882096000330 Q-loop/lid; other site 882096000331 ABC transporter signature motif; other site 882096000332 Walker B; other site 882096000333 D-loop; other site 882096000334 H-loop/switch region; other site 882096000335 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 882096000336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096000337 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882096000338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096000339 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 882096000340 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 882096000341 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 882096000342 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096000343 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 882096000344 ligand binding site [chemical binding]; other site 882096000345 flexible hinge region; other site 882096000346 Domain of unknown function (DUF955); Region: DUF955; pfam06114 882096000347 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 882096000348 non-specific DNA binding site [nucleotide binding]; other site 882096000349 salt bridge; other site 882096000350 sequence-specific DNA binding site [nucleotide binding]; other site 882096000351 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 882096000352 Predicted secreted protein [Function unknown]; Region: COG5437 882096000353 Phage-related protein [Function unknown]; Region: COG5412 882096000354 Phage tail protein; Region: Sipho_tail; pfam05709 882096000355 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 882096000356 Predicted membrane protein [Function unknown]; Region: COG1511 882096000357 Phage-related holin (Lysis protein) [General function prediction only]; Region: COG4824 882096000358 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 882096000359 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 882096000360 active site 882096000361 metal binding site [ion binding]; metal-binding site 882096000362 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 882096000363 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 882096000364 putative active site [active] 882096000365 putative metal binding site [ion binding]; other site 882096000366 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 882096000367 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 882096000368 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 882096000369 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 882096000370 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 882096000371 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 882096000372 active site 882096000373 Uncharacterized conserved protein [Function unknown]; Region: COG3592 882096000374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096000375 Coenzyme A binding pocket [chemical binding]; other site 882096000376 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 882096000377 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 882096000378 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882096000379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096000380 dimer interface [polypeptide binding]; other site 882096000381 conserved gate region; other site 882096000382 putative PBP binding loops; other site 882096000383 ABC-ATPase subunit interface; other site 882096000384 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 882096000385 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 882096000386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096000387 dimer interface [polypeptide binding]; other site 882096000388 conserved gate region; other site 882096000389 putative PBP binding loops; other site 882096000390 ABC-ATPase subunit interface; other site 882096000391 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 882096000392 LXG domain of WXG superfamily; Region: LXG; pfam04740 882096000393 ATP synthase CF1 alpha subunit; Region: atpA; CHL00059 882096000394 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 882096000395 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 882096000396 peptide binding site [polypeptide binding]; other site 882096000397 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 882096000398 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 882096000399 metal binding site [ion binding]; metal-binding site 882096000400 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 882096000401 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 882096000402 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 882096000403 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 882096000404 ABC-ATPase subunit interface; other site 882096000405 dimer interface [polypeptide binding]; other site 882096000406 putative PBP binding regions; other site 882096000407 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096000408 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096000409 ligand binding site [chemical binding]; other site 882096000410 flexible hinge region; other site 882096000411 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 882096000412 DEAD_2; Region: DEAD_2; pfam06733 882096000413 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 882096000414 sugar phosphate phosphatase; Provisional; Region: PRK10513 882096000415 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 882096000416 active site 882096000417 motif I; other site 882096000418 motif II; other site 882096000419 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 882096000420 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 882096000421 Collagen binding domain; Region: Collagen_bind; pfam05737 882096000422 Cna protein B-type domain; Region: Cna_B; pfam05738 882096000423 Cna protein B-type domain; Region: Cna_B; pfam05738 882096000424 Cna protein B-type domain; Region: Cna_B; pfam05738 882096000425 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 882096000426 Collagen binding domain; Region: Collagen_bind; pfam05737 882096000427 Cna protein B-type domain; Region: Cna_B; pfam05738 882096000428 Cna protein B-type domain; Region: Cna_B; pfam05738 882096000429 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 882096000430 DNA polymerase III subunit delta'; Validated; Region: PRK08058 882096000431 DNA polymerase III subunit delta'; Validated; Region: PRK08485 882096000432 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 882096000433 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467 882096000434 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 882096000435 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 882096000436 S-adenosylmethionine binding site [chemical binding]; other site 882096000437 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 882096000438 GIY-YIG motif/motif A; other site 882096000439 putative active site [active] 882096000440 putative metal binding site [ion binding]; other site 882096000441 Predicted methyltransferases [General function prediction only]; Region: COG0313 882096000442 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 882096000443 putative SAM binding site [chemical binding]; other site 882096000444 putative homodimer interface [polypeptide binding]; other site 882096000445 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 882096000446 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 882096000447 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 882096000448 Uncharacterized conserved protein [Function unknown]; Region: COG5361 882096000449 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 882096000450 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 882096000451 Leucine rich repeat; Region: LRR_8; pfam13855 882096000452 LRR adjacent; Region: LRR_adjacent; pfam08191 882096000453 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096000454 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096000455 Integrase core domain; Region: rve; pfam00665 882096000456 Integrase core domain; Region: rve_3; cl15866 882096000457 Homeodomain-like domain; Region: HTH_23; cl17451 882096000458 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882096000459 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 882096000460 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096000461 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 882096000462 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 882096000463 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 882096000464 active site 882096000465 HIGH motif; other site 882096000466 KMSKS motif; other site 882096000467 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 882096000468 tRNA binding surface [nucleotide binding]; other site 882096000469 anticodon binding site; other site 882096000470 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 882096000471 dimer interface [polypeptide binding]; other site 882096000472 putative tRNA-binding site [nucleotide binding]; other site 882096000473 MarR family; Region: MarR_2; cl17246 882096000474 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096000475 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096000476 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 882096000477 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 882096000478 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096000479 dimer interface [polypeptide binding]; other site 882096000480 conserved gate region; other site 882096000481 putative PBP binding loops; other site 882096000482 ABC-ATPase subunit interface; other site 882096000483 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882096000484 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096000485 dimer interface [polypeptide binding]; other site 882096000486 conserved gate region; other site 882096000487 putative PBP binding loops; other site 882096000488 ABC-ATPase subunit interface; other site 882096000489 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882096000490 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 882096000491 alpha-glucosidase; Provisional; Region: PRK10426 882096000492 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 882096000493 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 882096000494 active site 882096000495 catalytic site [active] 882096000496 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 882096000497 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 882096000498 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 882096000499 trimer interface [polypeptide binding]; other site 882096000500 active site 882096000501 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 882096000502 catalytic site [active] 882096000503 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 882096000504 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 882096000505 Ca binding site [ion binding]; other site 882096000506 active site 882096000507 catalytic site [active] 882096000508 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 882096000509 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 882096000510 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 882096000511 active site 882096000512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 882096000513 Domain of unknown function (DUF348); Region: DUF348; pfam03990 882096000514 Domain of unknown function (DUF348); Region: DUF348; pfam03990 882096000515 G5 domain; Region: G5; pfam07501 882096000516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 882096000517 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 882096000518 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 882096000519 putative active site [active] 882096000520 putative metal binding site [ion binding]; other site 882096000521 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 882096000522 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 882096000523 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 882096000524 S-adenosylmethionine binding site [chemical binding]; other site 882096000525 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 882096000526 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 882096000527 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 882096000528 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 882096000529 putative active site [active] 882096000530 YdjC motif; other site 882096000531 Mg binding site [ion binding]; other site 882096000532 putative homodimer interface [polypeptide binding]; other site 882096000533 pur operon repressor; Provisional; Region: PRK09213 882096000534 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 882096000535 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096000536 active site 882096000537 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 882096000538 HlyD family secretion protein; Region: HlyD_3; pfam13437 882096000539 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096000540 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096000541 Walker A/P-loop; other site 882096000542 ATP binding site [chemical binding]; other site 882096000543 Q-loop/lid; other site 882096000544 ABC transporter signature motif; other site 882096000545 Walker B; other site 882096000546 D-loop; other site 882096000547 H-loop/switch region; other site 882096000548 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882096000549 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 882096000550 FtsX-like permease family; Region: FtsX; pfam02687 882096000551 regulatory protein SpoVG; Reviewed; Region: PRK13259 882096000552 regulatory protein SpoVG; Reviewed; Region: PRK13259 882096000553 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 882096000554 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 882096000555 Substrate binding site; other site 882096000556 Mg++ binding site; other site 882096000557 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 882096000558 active site 882096000559 substrate binding site [chemical binding]; other site 882096000560 CoA binding site [chemical binding]; other site 882096000561 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 882096000562 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 882096000563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096000564 active site 882096000565 Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C; Region: PI-PLCc; cd00137 882096000566 active site 882096000567 catalytic site [active] 882096000568 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 882096000569 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 882096000570 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 882096000571 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 882096000572 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 882096000573 active site 882096000574 Zn binding site [ion binding]; other site 882096000575 ActA Protein; Region: ActA; pfam05058 882096000576 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 882096000577 Zn binding site [ion binding]; other site 882096000578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 882096000579 hypothetical protein; Provisional; Region: PRK01119 882096000580 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 882096000581 A new structural DNA glycosylase; Region: AlkD_like; cd06561 882096000582 active site 882096000583 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 882096000584 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 882096000585 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096000586 NAD binding site [chemical binding]; other site 882096000587 dimer interface [polypeptide binding]; other site 882096000588 substrate binding site [chemical binding]; other site 882096000589 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 882096000590 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 882096000591 5S rRNA interface [nucleotide binding]; other site 882096000592 CTC domain interface [polypeptide binding]; other site 882096000593 L16 interface [polypeptide binding]; other site 882096000594 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 882096000595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096000596 Coenzyme A binding pocket [chemical binding]; other site 882096000597 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 882096000598 putative active site [active] 882096000599 catalytic residue [active] 882096000600 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 882096000601 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 882096000602 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 882096000603 ATP binding site [chemical binding]; other site 882096000604 putative Mg++ binding site [ion binding]; other site 882096000605 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 882096000606 nucleotide binding region [chemical binding]; other site 882096000607 ATP-binding site [chemical binding]; other site 882096000608 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 882096000609 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 882096000610 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 882096000611 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 882096000612 RNA binding surface [nucleotide binding]; other site 882096000613 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 882096000614 Septum formation initiator; Region: DivIC; pfam04977 882096000615 hypothetical protein; Provisional; Region: PRK08582 882096000616 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 882096000617 RNA binding site [nucleotide binding]; other site 882096000618 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 882096000619 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 882096000620 Ligand Binding Site [chemical binding]; other site 882096000621 TilS substrate C-terminal domain; Region: TilS_C; smart00977 882096000622 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 882096000623 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096000624 active site 882096000625 FtsH Extracellular; Region: FtsH_ext; pfam06480 882096000626 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 882096000627 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 882096000628 Walker A motif; other site 882096000629 ATP binding site [chemical binding]; other site 882096000630 Walker B motif; other site 882096000631 arginine finger; other site 882096000632 Peptidase family M41; Region: Peptidase_M41; pfam01434 882096000633 pantothenate kinase; Reviewed; Region: PRK13318 882096000634 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 882096000635 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 882096000636 dimerization interface [polypeptide binding]; other site 882096000637 domain crossover interface; other site 882096000638 redox-dependent activation switch; other site 882096000639 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 882096000640 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 882096000641 dimer interface [polypeptide binding]; other site 882096000642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096000643 catalytic residue [active] 882096000644 dihydropteroate synthase; Region: DHPS; TIGR01496 882096000645 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 882096000646 substrate binding pocket [chemical binding]; other site 882096000647 dimer interface [polypeptide binding]; other site 882096000648 inhibitor binding site; inhibition site 882096000649 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 882096000650 homooctamer interface [polypeptide binding]; other site 882096000651 active site 882096000652 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 882096000653 catalytic center binding site [active] 882096000654 ATP binding site [chemical binding]; other site 882096000655 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 882096000656 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 882096000657 FMN binding site [chemical binding]; other site 882096000658 active site 882096000659 catalytic residues [active] 882096000660 substrate binding site [chemical binding]; other site 882096000661 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 882096000662 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 882096000663 dimer interface [polypeptide binding]; other site 882096000664 putative anticodon binding site; other site 882096000665 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 882096000666 motif 1; other site 882096000667 active site 882096000668 motif 2; other site 882096000669 motif 3; other site 882096000670 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 882096000671 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 882096000672 UvrB/uvrC motif; Region: UVR; pfam02151 882096000673 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 882096000674 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 882096000675 ADP binding site [chemical binding]; other site 882096000676 phosphagen binding site; other site 882096000677 substrate specificity loop; other site 882096000678 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 882096000679 Clp amino terminal domain; Region: Clp_N; pfam02861 882096000680 Clp amino terminal domain; Region: Clp_N; pfam02861 882096000681 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 882096000682 Walker A motif; other site 882096000683 ATP binding site [chemical binding]; other site 882096000684 Walker B motif; other site 882096000685 arginine finger; other site 882096000686 UvrB/uvrC motif; Region: UVR; pfam02151 882096000687 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 882096000688 Walker A motif; other site 882096000689 ATP binding site [chemical binding]; other site 882096000690 Walker B motif; other site 882096000691 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 882096000692 DNA repair protein RadA; Provisional; Region: PRK11823 882096000693 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 882096000694 Walker A motif/ATP binding site; other site 882096000695 ATP binding site [chemical binding]; other site 882096000696 Walker B motif; other site 882096000697 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 882096000698 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 882096000699 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 882096000700 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 882096000701 putative active site [active] 882096000702 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 882096000703 substrate binding site; other site 882096000704 dimer interface; other site 882096000705 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 882096000706 homotrimer interaction site [polypeptide binding]; other site 882096000707 zinc binding site [ion binding]; other site 882096000708 CDP-binding sites; other site 882096000709 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 882096000710 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 882096000711 HIGH motif; other site 882096000712 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 882096000713 active site 882096000714 KMSKS motif; other site 882096000715 serine O-acetyltransferase; Region: cysE; TIGR01172 882096000716 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 882096000717 trimer interface [polypeptide binding]; other site 882096000718 active site 882096000719 substrate binding site [chemical binding]; other site 882096000720 CoA binding site [chemical binding]; other site 882096000721 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 882096000722 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 882096000723 active site 882096000724 HIGH motif; other site 882096000725 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 882096000726 KMSKS motif; other site 882096000727 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 882096000728 tRNA binding surface [nucleotide binding]; other site 882096000729 anticodon binding site; other site 882096000730 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 882096000731 active site 882096000732 metal binding site [ion binding]; metal-binding site 882096000733 dimerization interface [polypeptide binding]; other site 882096000734 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 882096000735 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 882096000736 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 882096000737 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 882096000738 RNA polymerase factor sigma-70; Validated; Region: PRK08295 882096000739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882096000740 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 882096000741 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 882096000742 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 882096000743 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 882096000744 putative homodimer interface [polypeptide binding]; other site 882096000745 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 882096000746 heterodimer interface [polypeptide binding]; other site 882096000747 homodimer interface [polypeptide binding]; other site 882096000748 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 882096000749 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 882096000750 23S rRNA interface [nucleotide binding]; other site 882096000751 L7/L12 interface [polypeptide binding]; other site 882096000752 putative thiostrepton binding site; other site 882096000753 L25 interface [polypeptide binding]; other site 882096000754 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 882096000755 mRNA/rRNA interface [nucleotide binding]; other site 882096000756 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 882096000757 23S rRNA interface [nucleotide binding]; other site 882096000758 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 882096000759 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 882096000760 core dimer interface [polypeptide binding]; other site 882096000761 peripheral dimer interface [polypeptide binding]; other site 882096000762 L10 interface [polypeptide binding]; other site 882096000763 L11 interface [polypeptide binding]; other site 882096000764 putative EF-Tu interaction site [polypeptide binding]; other site 882096000765 putative EF-G interaction site [polypeptide binding]; other site 882096000766 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 882096000767 Methyltransferase domain; Region: Methyltransf_31; pfam13847 882096000768 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 882096000769 S-adenosylmethionine binding site [chemical binding]; other site 882096000770 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 882096000771 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 882096000772 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 882096000773 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 882096000774 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 882096000775 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 882096000776 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 882096000777 RPB10 interaction site [polypeptide binding]; other site 882096000778 RPB1 interaction site [polypeptide binding]; other site 882096000779 RPB11 interaction site [polypeptide binding]; other site 882096000780 RPB3 interaction site [polypeptide binding]; other site 882096000781 RPB12 interaction site [polypeptide binding]; other site 882096000782 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 882096000783 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 882096000784 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 882096000785 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 882096000786 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 882096000787 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 882096000788 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 882096000789 G-loop; other site 882096000790 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 882096000791 DNA binding site [nucleotide binding] 882096000792 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 882096000793 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 882096000794 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 882096000795 active site 882096000796 motif I; other site 882096000797 motif II; other site 882096000798 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096000799 beta-galactosidase; Region: BGL; TIGR03356 882096000800 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096000801 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096000802 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000803 Substrate binding site [chemical binding]; other site 882096000804 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000805 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000806 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000807 LRR adjacent; Region: LRR_adjacent; pfam08191 882096000808 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096000809 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096000810 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096000811 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096000812 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096000813 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000814 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000815 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000816 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000817 LRR adjacent; Region: LRR_adjacent; pfam08191 882096000818 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096000819 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096000820 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096000821 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096000822 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000823 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000824 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000825 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000826 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000827 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000828 LRR adjacent; Region: LRR_adjacent; pfam08191 882096000829 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096000830 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096000831 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096000832 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000833 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000834 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000835 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000836 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000837 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096000838 LRR adjacent; Region: LRR_adjacent; pfam08191 882096000839 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096000840 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096000841 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 882096000842 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 882096000843 metal binding site [ion binding]; metal-binding site 882096000844 dimer interface [polypeptide binding]; other site 882096000845 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096000846 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 882096000847 putative Zn2+ binding site [ion binding]; other site 882096000848 putative DNA binding site [nucleotide binding]; other site 882096000849 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 882096000850 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096000851 Zn binding site [ion binding]; other site 882096000852 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 882096000853 Zn binding site [ion binding]; other site 882096000854 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 882096000855 catalytic core [active] 882096000856 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882096000857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096000858 dimer interface [polypeptide binding]; other site 882096000859 conserved gate region; other site 882096000860 putative PBP binding loops; other site 882096000861 ABC-ATPase subunit interface; other site 882096000862 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 882096000863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096000864 dimer interface [polypeptide binding]; other site 882096000865 conserved gate region; other site 882096000866 ABC-ATPase subunit interface; other site 882096000867 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 882096000868 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096000869 beta-galactosidase; Region: BGL; TIGR03356 882096000870 sugar phosphate phosphatase; Provisional; Region: PRK10513 882096000871 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 882096000872 active site 882096000873 motif I; other site 882096000874 motif II; other site 882096000875 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 882096000876 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096000877 Coenzyme A binding pocket [chemical binding]; other site 882096000878 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096000879 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096000880 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 882096000881 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 882096000882 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 882096000883 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 882096000884 active site 882096000885 motif I; other site 882096000886 motif II; other site 882096000887 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 882096000888 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882096000889 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096000890 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 882096000891 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 882096000892 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 882096000893 Walker A/P-loop; other site 882096000894 ATP binding site [chemical binding]; other site 882096000895 Q-loop/lid; other site 882096000896 ABC transporter signature motif; other site 882096000897 Walker B; other site 882096000898 D-loop; other site 882096000899 H-loop/switch region; other site 882096000900 TOBE domain; Region: TOBE; pfam03459 882096000901 ATP cone domain; Region: ATP-cone; pfam03477 882096000902 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 882096000903 Class III ribonucleotide reductase; Region: RNR_III; cd01675 882096000904 effector binding site; other site 882096000905 active site 882096000906 Zn binding site [ion binding]; other site 882096000907 glycine loop; other site 882096000908 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 882096000909 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 882096000910 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096000911 Walker A/P-loop; other site 882096000912 ATP binding site [chemical binding]; other site 882096000913 ABC transporter; Region: ABC_tran; pfam00005 882096000914 Q-loop/lid; other site 882096000915 ABC transporter signature motif; other site 882096000916 Walker B; other site 882096000917 D-loop; other site 882096000918 CitB domain protein; Region: CitB; TIGR02484 882096000919 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096000920 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096000921 ligand binding site [chemical binding]; other site 882096000922 flexible hinge region; other site 882096000923 Predicted amidohydrolase [General function prediction only]; Region: COG0388 882096000924 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 882096000925 putative active site [active] 882096000926 catalytic triad [active] 882096000927 putative dimer interface [polypeptide binding]; other site 882096000928 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096000929 dimer interface [polypeptide binding]; other site 882096000930 conserved gate region; other site 882096000931 ABC-ATPase subunit interface; other site 882096000932 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 882096000933 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 882096000934 Walker A/P-loop; other site 882096000935 ATP binding site [chemical binding]; other site 882096000936 Q-loop/lid; other site 882096000937 ABC transporter signature motif; other site 882096000938 Walker B; other site 882096000939 D-loop; other site 882096000940 H-loop/switch region; other site 882096000941 NIL domain; Region: NIL; pfam09383 882096000942 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 882096000943 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 882096000944 transaminase; Reviewed; Region: PRK08068 882096000945 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 882096000946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096000947 homodimer interface [polypeptide binding]; other site 882096000948 catalytic residue [active] 882096000949 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096000950 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 882096000951 active site 882096000952 phosphorylation site [posttranslational modification] 882096000953 intermolecular recognition site; other site 882096000954 dimerization interface [polypeptide binding]; other site 882096000955 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 882096000956 DNA binding site [nucleotide binding] 882096000957 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 882096000958 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 882096000959 dimerization interface [polypeptide binding]; other site 882096000960 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 882096000961 putative active site [active] 882096000962 heme pocket [chemical binding]; other site 882096000963 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 882096000964 dimer interface [polypeptide binding]; other site 882096000965 phosphorylation site [posttranslational modification] 882096000966 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 882096000967 ATP binding site [chemical binding]; other site 882096000968 Mg2+ binding site [ion binding]; other site 882096000969 G-X-G motif; other site 882096000970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 882096000971 YycH protein; Region: YycH; pfam07435 882096000972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4853 882096000973 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 882096000974 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 882096000975 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 882096000976 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 882096000977 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 882096000978 protein binding site [polypeptide binding]; other site 882096000979 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 882096000980 Recombinase; Region: Recombinase; pfam07508 882096000981 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 882096000982 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 882096000983 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 882096000984 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 882096000985 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 882096000986 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 882096000987 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 882096000988 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 882096000989 ATP binding site [chemical binding]; other site 882096000990 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 882096000991 putative Mg++ binding site [ion binding]; other site 882096000992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096000993 Coenzyme A binding pocket [chemical binding]; other site 882096000994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096000995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096000996 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 882096000997 dimerization interface [polypeptide binding]; other site 882096000998 Protein of unknown function (DUF998); Region: DUF998; pfam06197 882096000999 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096001000 HTH domain; Region: HTH_11; pfam08279 882096001001 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096001002 PRD domain; Region: PRD; pfam00874 882096001003 PRD domain; Region: PRD; pfam00874 882096001004 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096001005 active site 882096001006 P-loop; other site 882096001007 phosphorylation site [posttranslational modification] 882096001008 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 882096001009 active site 882096001010 phosphorylation site [posttranslational modification] 882096001011 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096001012 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096001013 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096001014 active site 882096001015 P-loop; other site 882096001016 phosphorylation site [posttranslational modification] 882096001017 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096001018 beta-galactosidase; Region: BGL; TIGR03356 882096001019 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096001020 methionine cluster; other site 882096001021 active site 882096001022 phosphorylation site [posttranslational modification] 882096001023 metal binding site [ion binding]; metal-binding site 882096001024 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 882096001025 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 882096001026 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 882096001027 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 882096001028 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882096001029 catalytic residue [active] 882096001030 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 882096001031 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 882096001032 nucleophilic elbow; other site 882096001033 catalytic triad; other site 882096001034 Uncharacterized conserved protein [Function unknown]; Region: COG1479 882096001035 Protein of unknown function DUF262; Region: DUF262; pfam03235 882096001036 Protein of unknown function DUF262; Region: DUF262; pfam03235 882096001037 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 882096001038 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 882096001039 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_1; cd10805 882096001040 putative active site [active] 882096001041 YdjC motif; other site 882096001042 Mg binding site [ion binding]; other site 882096001043 putative homodimer interface [polypeptide binding]; other site 882096001044 Putative transcription activator [Transcription]; Region: TenA; COG0819 882096001045 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 882096001046 substrate binding site [chemical binding]; other site 882096001047 multimerization interface [polypeptide binding]; other site 882096001048 ATP binding site [chemical binding]; other site 882096001049 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 882096001050 dimer interface [polypeptide binding]; other site 882096001051 substrate binding site [chemical binding]; other site 882096001052 ATP binding site [chemical binding]; other site 882096001053 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 882096001054 thiamine phosphate binding site [chemical binding]; other site 882096001055 active site 882096001056 pyrophosphate binding site [ion binding]; other site 882096001057 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096001058 beta-galactosidase; Region: BGL; TIGR03356 882096001059 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 882096001060 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 882096001061 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 882096001062 putative catalytic site [active] 882096001063 putative metal binding site [ion binding]; other site 882096001064 putative phosphate binding site [ion binding]; other site 882096001065 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 882096001066 non-specific DNA binding site [nucleotide binding]; other site 882096001067 salt bridge; other site 882096001068 sequence-specific DNA binding site [nucleotide binding]; other site 882096001069 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 882096001070 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 882096001071 non-specific DNA binding site [nucleotide binding]; other site 882096001072 salt bridge; other site 882096001073 sequence-specific DNA binding site [nucleotide binding]; other site 882096001074 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 882096001075 Leucine rich repeat; Region: LRR_8; pfam13855 882096001076 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001077 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001078 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001079 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001080 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001081 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001082 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001083 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001084 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001085 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001086 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001087 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001088 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001089 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001090 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001091 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096001092 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001093 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096001094 Leucine-rich repeats; other site 882096001095 Substrate binding site [chemical binding]; other site 882096001096 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001097 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001098 Leucine rich repeat; Region: LRR_8; pfam13855 882096001099 Leucine rich repeat; Region: LRR_8; pfam13855 882096001100 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001101 Leucine rich repeat; Region: LRR_8; pfam13855 882096001102 Leucine rich repeat; Region: LRR_8; pfam13855 882096001103 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001104 LRR adjacent; Region: LRR_adjacent; pfam08191 882096001105 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001106 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001107 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001108 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 882096001109 Protein of unknown function (DUF3130; Region: DUF3130; pfam11328 882096001110 LXG domain of WXG superfamily; Region: LXG; pfam04740 882096001111 Inorganic pyrophosphatase [Energy production and conversion]; Region: Ppa; COG0221 882096001112 Enterocin A Immunity; Region: EntA_Immun; pfam08951 882096001113 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 882096001114 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 882096001115 TPP-binding site [chemical binding]; other site 882096001116 dimer interface [polypeptide binding]; other site 882096001117 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 882096001118 PYR/PP interface [polypeptide binding]; other site 882096001119 dimer interface [polypeptide binding]; other site 882096001120 TPP binding site [chemical binding]; other site 882096001121 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882096001122 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 882096001123 active site 882096001124 intersubunit interactions; other site 882096001125 catalytic residue [active] 882096001126 short chain dehydrogenase; Provisional; Region: PRK06841 882096001127 classical (c) SDRs; Region: SDR_c; cd05233 882096001128 NAD(P) binding site [chemical binding]; other site 882096001129 active site 882096001130 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 882096001131 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 882096001132 substrate binding site [chemical binding]; other site 882096001133 dimer interface [polypeptide binding]; other site 882096001134 catalytic triad [active] 882096001135 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 882096001136 DAK2 domain; Region: Dak2; cl03685 882096001137 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 882096001138 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 882096001139 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 882096001140 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882096001141 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 882096001142 putative DNA binding site [nucleotide binding]; other site 882096001143 putative Zn2+ binding site [ion binding]; other site 882096001144 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 882096001145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096001146 Coenzyme A binding pocket [chemical binding]; other site 882096001147 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 882096001148 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882096001149 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882096001150 acyl-activating enzyme (AAE) consensus motif; other site 882096001151 acyl-activating enzyme (AAE) consensus motif; other site 882096001152 AMP binding site [chemical binding]; other site 882096001153 active site 882096001154 CoA binding site [chemical binding]; other site 882096001155 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 882096001156 L-aspartate oxidase; Provisional; Region: PRK06175 882096001157 putative oxidoreductase; Provisional; Region: PRK10206 882096001158 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096001159 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 882096001160 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 882096001161 active site 882096001162 phosphorylation site [posttranslational modification] 882096001163 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 882096001164 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 882096001165 active site 882096001166 P-loop; other site 882096001167 phosphorylation site [posttranslational modification] 882096001168 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 882096001169 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 882096001170 intersubunit interface [polypeptide binding]; other site 882096001171 active site 882096001172 zinc binding site [ion binding]; other site 882096001173 Na+ binding site [ion binding]; other site 882096001174 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882096001175 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 882096001176 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 882096001177 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 882096001178 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 882096001179 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 882096001180 conserved cys residue [active] 882096001181 Predicted transcriptional regulator [Transcription]; Region: COG2378 882096001182 HTH domain; Region: HTH_11; pfam08279 882096001183 WYL domain; Region: WYL; pfam13280 882096001184 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 882096001185 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 882096001186 Imelysin; Region: Peptidase_M75; pfam09375 882096001187 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 882096001188 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 882096001189 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 882096001190 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 882096001191 nudix motif; other site 882096001192 hypothetical protein; Provisional; Region: PRK12378 882096001193 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 882096001194 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 882096001195 PhnA protein; Region: PhnA; pfam03831 882096001196 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096001197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096001198 DNA-binding site [nucleotide binding]; DNA binding site 882096001199 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 882096001200 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096001201 beta-galactosidase; Region: BGL; TIGR03356 882096001202 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096001203 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 882096001204 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096001205 active site 882096001206 P-loop; other site 882096001207 phosphorylation site [posttranslational modification] 882096001208 Predicted transcriptional regulator [Transcription]; Region: COG2378 882096001209 HTH domain; Region: HTH_11; pfam08279 882096001210 WYL domain; Region: WYL; pfam13280 882096001211 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882096001212 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 882096001213 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 882096001214 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 882096001215 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 882096001216 tetrameric interface [polypeptide binding]; other site 882096001217 NAD binding site [chemical binding]; other site 882096001218 catalytic residues [active] 882096001219 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 882096001220 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 882096001221 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 882096001222 substrate binding site [chemical binding]; other site 882096001223 ATP binding site [chemical binding]; other site 882096001224 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 882096001225 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882096001226 PYR/PP interface [polypeptide binding]; other site 882096001227 dimer interface [polypeptide binding]; other site 882096001228 TPP binding site [chemical binding]; other site 882096001229 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882096001230 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 882096001231 TPP-binding site; other site 882096001232 Uncharacterized conserved protein [Function unknown]; Region: COG5646 882096001233 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 882096001234 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 882096001235 ligand binding site [chemical binding]; other site 882096001236 active site 882096001237 UGI interface [polypeptide binding]; other site 882096001238 catalytic site [active] 882096001239 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 882096001240 hypothetical protein; Provisional; Region: PRK13665 882096001241 Bacterial SH3 domain; Region: SH3_3; cl17532 882096001242 NlpC/P60 family; Region: NLPC_P60; pfam00877 882096001243 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 882096001244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096001245 Coenzyme A binding pocket [chemical binding]; other site 882096001246 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 882096001247 pyrroline-5-carboxylate reductase; Region: PLN02688 882096001248 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 882096001249 putative hydrophobic ligand binding site [chemical binding]; other site 882096001250 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 882096001251 active site 882096001252 phosphorylation site [posttranslational modification] 882096001253 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 882096001254 active site 882096001255 P-loop; other site 882096001256 phosphorylation site [posttranslational modification] 882096001257 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 882096001258 alpha-mannosidase; Provisional; Region: PRK09819 882096001259 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 882096001260 active site 882096001261 metal binding site [ion binding]; metal-binding site 882096001262 catalytic site [active] 882096001263 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 882096001264 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096001265 HTH domain; Region: HTH_11; pfam08279 882096001266 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096001267 PRD domain; Region: PRD; pfam00874 882096001268 PRD domain; Region: PRD; pfam00874 882096001269 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096001270 active site 882096001271 P-loop; other site 882096001272 phosphorylation site [posttranslational modification] 882096001273 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 882096001274 active site 882096001275 phosphorylation site [posttranslational modification] 882096001276 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 882096001277 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_3; cd07241 882096001278 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096001279 putative metal binding site [ion binding]; other site 882096001280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 882096001281 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 882096001282 trimer interface [polypeptide binding]; other site 882096001283 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096001284 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 882096001285 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096001286 Leucine-rich repeats; other site 882096001287 Substrate binding site [chemical binding]; other site 882096001288 LRR adjacent; Region: LRR_adjacent; pfam08191 882096001289 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001290 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001291 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001292 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001293 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096001294 phosphoenolpyruvate synthase; Validated; Region: PRK06241 882096001295 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882096001296 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882096001297 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 882096001298 ZIP Zinc transporter; Region: Zip; pfam02535 882096001299 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 882096001300 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 882096001301 NodB motif; other site 882096001302 active site 882096001303 catalytic site [active] 882096001304 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 882096001305 non-specific DNA binding site [nucleotide binding]; other site 882096001306 salt bridge; other site 882096001307 sequence-specific DNA binding site [nucleotide binding]; other site 882096001308 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 882096001309 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 882096001310 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 882096001311 active site 882096001312 motif I; other site 882096001313 motif II; other site 882096001314 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 882096001315 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 882096001316 lineage-specific thermal regulator protein; Provisional; Region: lstR; PRK09416 882096001317 Predicted transcriptional regulators [Transcription]; Region: COG1695 882096001318 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 882096001319 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882096001320 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 882096001321 DNA binding residues [nucleotide binding] 882096001322 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 882096001323 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096001324 HTH domain; Region: HTH_11; pfam08279 882096001325 PRD domain; Region: PRD; pfam00874 882096001326 PRD domain; Region: PRD; pfam00874 882096001327 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096001328 active site 882096001329 P-loop; other site 882096001330 phosphorylation site [posttranslational modification] 882096001331 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 882096001332 active site 882096001333 phosphorylation site [posttranslational modification] 882096001334 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 882096001335 active site 882096001336 phosphorylation site [posttranslational modification] 882096001337 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 882096001338 active site 882096001339 P-loop; other site 882096001340 phosphorylation site [posttranslational modification] 882096001341 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 882096001342 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 882096001343 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 882096001344 active site 882096001345 metal binding site [ion binding]; metal-binding site 882096001346 catalytic site [active] 882096001347 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 882096001348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096001349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096001350 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 882096001351 dimerization interface [polypeptide binding]; other site 882096001352 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 882096001353 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 882096001354 active site 882096001355 substrate binding site [chemical binding]; other site 882096001356 trimer interface [polypeptide binding]; other site 882096001357 CoA binding site [chemical binding]; other site 882096001358 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 882096001359 classical (c) SDRs; Region: SDR_c; cd05233 882096001360 NAD(P) binding site [chemical binding]; other site 882096001361 active site 882096001362 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096001363 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001364 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096001365 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001366 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001367 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001368 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001369 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001370 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001371 LRR adjacent; Region: LRR_adjacent; pfam08191 882096001372 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001373 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001374 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001375 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096001376 Leucine rich repeat; Region: LRR_8; pfam13855 882096001377 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096001378 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001379 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001380 LRR adjacent; Region: LRR_adjacent; pfam08191 882096001381 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 882096001382 SH3-like domain; Region: SH3_8; pfam13457 882096001383 Predicted transcriptional regulator [Transcription]; Region: COG1959 882096001384 Transcriptional regulator; Region: Rrf2; pfam02082 882096001385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882096001386 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 882096001387 NAD(P) binding site [chemical binding]; other site 882096001388 active site 882096001389 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 882096001390 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 882096001391 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 882096001392 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 882096001393 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 882096001394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882096001395 Transcriptional regulator [Transcription]; Region: LytR; COG1316 882096001396 Predicted membrane protein [Function unknown]; Region: COG1511 882096001397 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 882096001398 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 882096001399 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 882096001400 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 882096001401 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096001402 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 882096001403 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 882096001404 active site 882096001405 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 882096001406 L-tyrosine decarboxylase; Provisional; Region: PRK13520 882096001407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096001408 catalytic residue [active] 882096001409 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 882096001410 Signal peptide peptidase; Region: Peptidase_A22B; cl01342 882096001411 Predicted membrane protein [Function unknown]; Region: COG3619 882096001412 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 882096001413 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 882096001414 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 882096001415 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 882096001416 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 882096001417 Protein of unknown function DUF58; Region: DUF58; pfam01882 882096001418 MoxR-like ATPases [General function prediction only]; Region: COG0714 882096001419 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 882096001420 Walker A motif; other site 882096001421 ATP binding site [chemical binding]; other site 882096001422 Walker B motif; other site 882096001423 arginine finger; other site 882096001424 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 882096001425 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 882096001426 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 882096001427 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 882096001428 Na binding site [ion binding]; other site 882096001429 Uncharacterized conserved protein [Function unknown]; Region: COG3535 882096001430 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 882096001431 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096001432 nucleotide binding site [chemical binding]; other site 882096001433 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 882096001434 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 882096001435 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 882096001436 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096001437 Zn2+ binding site [ion binding]; other site 882096001438 Mg2+ binding site [ion binding]; other site 882096001439 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 882096001440 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 882096001441 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 882096001442 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 882096001443 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096001444 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 882096001445 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 882096001446 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 882096001447 FeS/SAM binding site; other site 882096001448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 882096001449 heme-degrading monooxygenase IsdG; Provisional; Region: PRK13316 882096001450 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 882096001451 putative FMN binding site [chemical binding]; other site 882096001452 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 882096001453 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 882096001454 nudix motif; other site 882096001455 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096001456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096001457 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 882096001458 putative dimerization interface [polypeptide binding]; other site 882096001459 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 882096001460 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 882096001461 active site 882096001462 FMN binding site [chemical binding]; other site 882096001463 substrate binding site [chemical binding]; other site 882096001464 putative catalytic residue [active] 882096001465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 882096001466 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096001467 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096001468 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 882096001469 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 882096001470 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 882096001471 shikimate binding site; other site 882096001472 NAD(P) binding site [chemical binding]; other site 882096001473 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 882096001474 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 882096001475 active site 882096001476 catalytic residue [active] 882096001477 dimer interface [polypeptide binding]; other site 882096001478 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096001479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096001480 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 882096001481 dimerization interface [polypeptide binding]; other site 882096001482 substrate binding pocket [chemical binding]; other site 882096001483 Predicted acyl esterases [General function prediction only]; Region: COG2936 882096001484 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 882096001485 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 882096001486 active site 882096001487 catalytic triad [active] 882096001488 oxyanion hole [active] 882096001489 EamA-like transporter family; Region: EamA; pfam00892 882096001490 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 882096001491 EamA-like transporter family; Region: EamA; pfam00892 882096001492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 882096001493 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 882096001494 active site 882096001495 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 882096001496 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 882096001497 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 882096001498 substrate binding site [chemical binding]; other site 882096001499 hexamer interface [polypeptide binding]; other site 882096001500 metal binding site [ion binding]; metal-binding site 882096001501 Transaldolase [Carbohydrate transport and metabolism]; Region: MipB; COG0176 882096001502 catalytic residue [active] 882096001503 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096001504 PRD domain; Region: PRD; pfam00874 882096001505 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096001506 active site 882096001507 P-loop; other site 882096001508 phosphorylation site [posttranslational modification] 882096001509 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 882096001510 active site 882096001511 phosphorylation site [posttranslational modification] 882096001512 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 882096001513 putative active site [active] 882096001514 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 882096001515 active site 882096001516 phosphorylation site [posttranslational modification] 882096001517 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 882096001518 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 882096001519 substrate binding site [chemical binding]; other site 882096001520 hexamer interface [polypeptide binding]; other site 882096001521 metal binding site [ion binding]; metal-binding site 882096001522 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882096001523 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 882096001524 putative NAD(P) binding site [chemical binding]; other site 882096001525 catalytic Zn binding site [ion binding]; other site 882096001526 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 882096001527 active site 882096001528 P-loop; other site 882096001529 phosphorylation site [posttranslational modification] 882096001530 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 882096001531 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 882096001532 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 882096001533 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 882096001534 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096001535 active site 882096001536 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 882096001537 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 882096001538 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 882096001539 catalytic triad [active] 882096001540 conserved hypothetical protein; Region: lin0512_fam; TIGR02058 882096001541 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096001542 MarR family; Region: MarR_2; pfam12802 882096001543 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001544 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096001545 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 882096001546 Ligand Binding Site [chemical binding]; other site 882096001547 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 882096001548 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 882096001549 putative active site [active] 882096001550 putative metal binding site [ion binding]; other site 882096001551 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 882096001552 catalytic core [active] 882096001553 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 882096001554 Predicted membrane protein [Function unknown]; Region: COG3759 882096001555 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 882096001556 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096001557 putative substrate translocation pore; other site 882096001558 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 882096001559 non-specific DNA interactions [nucleotide binding]; other site 882096001560 DNA binding site [nucleotide binding] 882096001561 sequence specific DNA binding site [nucleotide binding]; other site 882096001562 putative cAMP binding site [chemical binding]; other site 882096001563 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096001564 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 882096001565 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 882096001566 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 882096001567 NAD binding site [chemical binding]; other site 882096001568 sugar binding site [chemical binding]; other site 882096001569 divalent metal binding site [ion binding]; other site 882096001570 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096001571 dimer interface [polypeptide binding]; other site 882096001572 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882096001573 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 882096001574 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 882096001575 putative active site [active] 882096001576 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 882096001577 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 882096001578 Sulfate transporter family; Region: Sulfate_transp; pfam00916 882096001579 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 882096001580 Uncharacterized conserved protein [Function unknown]; Region: COG5361 882096001581 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 882096001582 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 882096001583 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 882096001584 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 882096001585 DNA binding residues [nucleotide binding] 882096001586 dimer interface [polypeptide binding]; other site 882096001587 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 882096001588 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 882096001589 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882096001590 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 882096001591 DXD motif; other site 882096001592 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 882096001593 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 882096001594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 882096001595 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 882096001596 S-adenosylmethionine binding site [chemical binding]; other site 882096001597 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 882096001598 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 882096001599 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096001600 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096001601 DNA binding site [nucleotide binding] 882096001602 domain linker motif; other site 882096001603 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 882096001604 putative dimerization interface [polypeptide binding]; other site 882096001605 putative ligand binding site [chemical binding]; other site 882096001606 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 882096001607 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 882096001608 NAD binding site [chemical binding]; other site 882096001609 sugar binding site [chemical binding]; other site 882096001610 divalent metal binding site [ion binding]; other site 882096001611 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096001612 dimer interface [polypeptide binding]; other site 882096001613 allantoate amidohydrolase; Reviewed; Region: PRK09290 882096001614 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 882096001615 active site 882096001616 metal binding site [ion binding]; metal-binding site 882096001617 dimer interface [polypeptide binding]; other site 882096001618 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 882096001619 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 882096001620 metal binding site [ion binding]; metal-binding site 882096001621 putative dimer interface [polypeptide binding]; other site 882096001622 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 882096001623 Beta-lactamase; Region: Beta-lactamase; pfam00144 882096001624 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 882096001625 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 882096001626 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 882096001627 intersubunit interface [polypeptide binding]; other site 882096001628 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 882096001629 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 882096001630 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 882096001631 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 882096001632 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 882096001633 Glucitol operon activator protein (GutM); Region: GutM; cl01890 882096001634 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 882096001635 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096001636 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 882096001637 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 882096001638 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 882096001639 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096001640 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001641 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001642 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001643 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096001644 WxL domain surface cell wall-binding; Region: WxL; pfam13731 882096001645 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 882096001646 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 882096001647 FOG: CBS domain [General function prediction only]; Region: COG0517 882096001648 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 882096001649 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 882096001650 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 882096001651 dimer interface [polypeptide binding]; other site 882096001652 active site 882096001653 metal binding site [ion binding]; metal-binding site 882096001654 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 882096001655 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 882096001656 putative substrate translocation pore; other site 882096001657 POT family; Region: PTR2; pfam00854 882096001658 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 882096001659 catalytic core [active] 882096001660 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 882096001661 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 882096001662 catalytic core [active] 882096001663 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 882096001664 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 882096001665 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 882096001666 Cl binding site [ion binding]; other site 882096001667 oligomer interface [polypeptide binding]; other site 882096001668 glutamate dehydrogenase; Provisional; Region: PRK09414 882096001669 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 882096001670 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 882096001671 NAD(P) binding site [chemical binding]; other site 882096001672 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 882096001673 metal binding site [ion binding]; metal-binding site 882096001674 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 882096001675 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 882096001676 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 882096001677 substrate binding site [chemical binding]; other site 882096001678 glutamase interaction surface [polypeptide binding]; other site 882096001679 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 882096001680 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 882096001681 catalytic residues [active] 882096001682 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 882096001683 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 882096001684 putative active site [active] 882096001685 oxyanion strand; other site 882096001686 catalytic triad [active] 882096001687 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 882096001688 putative active site pocket [active] 882096001689 4-fold oligomerization interface [polypeptide binding]; other site 882096001690 metal binding residues [ion binding]; metal-binding site 882096001691 3-fold/trimer interface [polypeptide binding]; other site 882096001692 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 882096001693 histidinol dehydrogenase; Region: hisD; TIGR00069 882096001694 NAD binding site [chemical binding]; other site 882096001695 dimerization interface [polypeptide binding]; other site 882096001696 product binding site; other site 882096001697 substrate binding site [chemical binding]; other site 882096001698 zinc binding site [ion binding]; other site 882096001699 catalytic residues [active] 882096001700 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 882096001701 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 882096001702 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 882096001703 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 882096001704 dimer interface [polypeptide binding]; other site 882096001705 motif 1; other site 882096001706 active site 882096001707 motif 2; other site 882096001708 motif 3; other site 882096001709 histidinol-phosphatase; Reviewed; Region: PRK08123 882096001710 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 882096001711 active site 882096001712 dimer interface [polypeptide binding]; other site 882096001713 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 882096001714 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 882096001715 DNA binding site [nucleotide binding] 882096001716 active site 882096001717 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 882096001718 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 882096001719 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096001720 beta-galactosidase; Region: BGL; TIGR03356 882096001721 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096001722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096001723 DNA-binding site [nucleotide binding]; DNA binding site 882096001724 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 882096001725 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001726 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096001727 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 882096001728 Uncharacterized conserved protein [Function unknown]; Region: COG2966 882096001729 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 882096001730 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 882096001731 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 882096001732 Predicted esterase [General function prediction only]; Region: COG0400 882096001733 putative hydrolase; Provisional; Region: PRK11460 882096001734 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 882096001735 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 882096001736 putative RNA binding site [nucleotide binding]; other site 882096001737 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 882096001738 S-adenosylmethionine binding site [chemical binding]; other site 882096001739 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 882096001740 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096001741 Bacterial SH3 domain; Region: SH3_3; pfam08239 882096001742 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096001743 NlpC/P60 family; Region: NLPC_P60; pfam00877 882096001744 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 882096001745 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 882096001746 ATP binding site [chemical binding]; other site 882096001747 putative Mg++ binding site [ion binding]; other site 882096001748 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 882096001749 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 882096001750 nucleotide binding region [chemical binding]; other site 882096001751 ATP-binding site [chemical binding]; other site 882096001752 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882096001753 Domain of unknown function DUF20; Region: UPF0118; pfam01594 882096001754 WxL domain surface cell wall-binding; Region: WxL; pfam13731 882096001755 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 882096001756 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 882096001757 UreD urease accessory protein; Region: UreD; cl00530 882096001758 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 882096001759 DNA photolyase; Region: DNA_photolyase; pfam00875 882096001760 Predicted membrane protein [Function unknown]; Region: COG4852 882096001761 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 882096001762 DAK2 domain; Region: Dak2; pfam02734 882096001763 EDD domain protein, DegV family; Region: DegV; TIGR00762 882096001764 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 882096001765 Steroid 5-alpha reductase family enzyme [General function prediction only]; Region: COG3752 882096001766 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 882096001767 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 882096001768 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 882096001769 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 882096001770 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 882096001771 homodimer interface [polypeptide binding]; other site 882096001772 substrate-cofactor binding pocket; other site 882096001773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096001774 catalytic residue [active] 882096001775 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 882096001776 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096001777 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 882096001778 ligand binding site [chemical binding]; other site 882096001779 flexible hinge region; other site 882096001780 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882096001781 BioY family; Region: BioY; pfam02632 882096001782 Predicted transcriptional regulators [Transcription]; Region: COG1695 882096001783 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 882096001784 Predicted membrane protein [Function unknown]; Region: COG4709 882096001785 Uncharacterized conserved protein [Function unknown]; Region: COG3595 882096001786 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 882096001787 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 882096001788 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 882096001789 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 882096001790 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 882096001791 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096001792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 882096001793 Coenzyme A binding pocket [chemical binding]; other site 882096001794 Tic20-like protein; Region: Tic20; pfam09685 882096001795 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 882096001796 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 882096001797 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882096001798 MarR family; Region: MarR_2; pfam12802 882096001799 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096001800 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096001801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096001802 Walker A/P-loop; other site 882096001803 ATP binding site [chemical binding]; other site 882096001804 Q-loop/lid; other site 882096001805 ABC transporter signature motif; other site 882096001806 Walker B; other site 882096001807 D-loop; other site 882096001808 H-loop/switch region; other site 882096001809 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096001810 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096001811 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 882096001812 Walker A/P-loop; other site 882096001813 ATP binding site [chemical binding]; other site 882096001814 Q-loop/lid; other site 882096001815 ABC transporter signature motif; other site 882096001816 Walker B; other site 882096001817 D-loop; other site 882096001818 H-loop/switch region; other site 882096001819 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 882096001820 active site residue [active] 882096001821 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001822 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096001823 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 882096001824 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 882096001825 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882096001826 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 882096001827 putative DNA binding site [nucleotide binding]; other site 882096001828 putative Zn2+ binding site [ion binding]; other site 882096001829 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 882096001830 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 882096001831 putative NAD(P) binding site [chemical binding]; other site 882096001832 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882096001833 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 882096001834 Coenzyme A binding pocket [chemical binding]; other site 882096001835 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 882096001836 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 882096001837 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 882096001838 putative active site [active] 882096001839 catalytic site [active] 882096001840 putative metal binding site [ion binding]; other site 882096001841 Catalytic domain of Protein Kinases; Region: PKc; cd00180 882096001842 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 882096001843 active site 882096001844 ATP binding site [chemical binding]; other site 882096001845 substrate binding site [chemical binding]; other site 882096001846 activation loop (A-loop); other site 882096001847 Eukaryotic protein of unknown function (DUF872); Region: DUF872; pfam05915 882096001848 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 882096001849 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882096001850 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 882096001851 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 882096001852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096001853 Coenzyme A binding pocket [chemical binding]; other site 882096001854 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 882096001855 active site 882096001856 catalytic triad [active] 882096001857 oxyanion hole [active] 882096001858 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 882096001859 domain interaction interfaces [polypeptide binding]; other site 882096001860 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 882096001861 domain interaction interfaces [polypeptide binding]; other site 882096001862 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 882096001863 domain interaction interfaces [polypeptide binding]; other site 882096001864 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 882096001865 domain interaction interfaces [polypeptide binding]; other site 882096001866 Isochorismatase family; Region: Isochorismatase; pfam00857 882096001867 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 882096001868 catalytic triad [active] 882096001869 conserved cis-peptide bond; other site 882096001870 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096001871 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096001872 PRD domain; Region: PRD; pfam00874 882096001873 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096001874 active site 882096001875 P-loop; other site 882096001876 phosphorylation site [posttranslational modification] 882096001877 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 882096001878 active site 882096001879 phosphorylation site [posttranslational modification] 882096001880 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 882096001881 active site 882096001882 phosphorylation site [posttranslational modification] 882096001883 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 882096001884 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 882096001885 active site 882096001886 P-loop; other site 882096001887 phosphorylation site [posttranslational modification] 882096001888 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 882096001889 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 882096001890 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 882096001891 motif II; other site 882096001892 Predicted transcriptional regulator [Transcription]; Region: COG1959 882096001893 Transcriptional regulator; Region: Rrf2; pfam02082 882096001894 Methyltransferase domain; Region: Methyltransf_31; pfam13847 882096001895 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 882096001896 S-adenosylmethionine binding site [chemical binding]; other site 882096001897 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 882096001898 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 882096001899 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 882096001900 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 882096001901 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 882096001902 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096001903 active site 882096001904 catalytic tetrad [active] 882096001905 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 882096001906 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882096001907 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 882096001908 motif II; other site 882096001909 Transaldolase [Carbohydrate transport and metabolism]; Region: MipB; COG0176 882096001910 catalytic residue [active] 882096001911 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 882096001912 Sulfatase; Region: Sulfatase; pfam00884 882096001913 amino acid transporter; Region: 2A0306; TIGR00909 882096001914 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 882096001915 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 882096001916 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_12; cd07255 882096001917 putative metal binding site [ion binding]; other site 882096001918 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 882096001919 active site 882096001920 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 882096001921 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 882096001922 Cl binding site [ion binding]; other site 882096001923 oligomer interface [polypeptide binding]; other site 882096001924 Transcriptional regulators [Transcription]; Region: GntR; COG1802 882096001925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096001926 DNA-binding site [nucleotide binding]; DNA binding site 882096001927 Predicted membrane protein [Function unknown]; Region: COG1511 882096001928 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 882096001929 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 882096001930 linker region; other site 882096001931 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 882096001932 Transcriptional regulators [Transcription]; Region: GntR; COG1802 882096001933 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096001934 DNA-binding site [nucleotide binding]; DNA binding site 882096001935 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 882096001936 Predicted integral membrane protein [Function unknown]; Region: COG5523 882096001937 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 882096001938 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 882096001939 active site 882096001940 metal binding site [ion binding]; metal-binding site 882096001941 Predicted membrane protein [Function unknown]; Region: COG2322 882096001942 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 882096001943 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882096001944 minor groove reading motif; other site 882096001945 helix-hairpin-helix signature motif; other site 882096001946 substrate binding pocket [chemical binding]; other site 882096001947 active site 882096001948 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 882096001949 non-specific DNA binding site [nucleotide binding]; other site 882096001950 salt bridge; other site 882096001951 sequence-specific DNA binding site [nucleotide binding]; other site 882096001952 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 882096001953 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882096001954 Helix-turn-helix domain; Region: HTH_28; pfam13518 882096001955 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 882096001956 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 882096001957 dimer interface [polypeptide binding]; other site 882096001958 substrate binding site [chemical binding]; other site 882096001959 ATP binding site [chemical binding]; other site 882096001960 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096001961 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 882096001962 active site 882096001963 motif I; other site 882096001964 motif II; other site 882096001965 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 882096001966 maltose O-acetyltransferase; Provisional; Region: PRK10092 882096001967 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 882096001968 active site 882096001969 substrate binding site [chemical binding]; other site 882096001970 trimer interface [polypeptide binding]; other site 882096001971 CoA binding site [chemical binding]; other site 882096001972 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 882096001973 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882096001974 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882096001975 Walker A/P-loop; other site 882096001976 ATP binding site [chemical binding]; other site 882096001977 Q-loop/lid; other site 882096001978 ABC transporter signature motif; other site 882096001979 Walker B; other site 882096001980 D-loop; other site 882096001981 H-loop/switch region; other site 882096001982 inner membrane transport permease; Provisional; Region: PRK15066 882096001983 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 882096001984 oxidoreductase; Provisional; Region: PRK07985 882096001985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882096001986 NAD(P) binding site [chemical binding]; other site 882096001987 active site 882096001988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 882096001989 Predicted membrane protein [Function unknown]; Region: COG3152 882096001990 DNA binding domain of the motility gene repressor (MogR); Region: MogR_DNAbind; pfam12181 882096001991 Flagellar biosynthesis pathway, component FliP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliP; COG1338 882096001992 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 882096001993 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 882096001994 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 882096001995 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 882096001996 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 882096001997 FHIPEP family; Region: FHIPEP; pfam00771 882096001998 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12726 882096001999 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 882096002000 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12819 882096002001 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882096002002 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 882096002003 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 882096002004 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 882096002005 Protein of unknown function (DUF3964); Region: DUF3964; pfam13107 882096002006 flagellar motor protein MotA; Validated; Region: PRK08124 882096002007 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 882096002008 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 882096002009 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 882096002010 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882096002011 ligand binding site [chemical binding]; other site 882096002012 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882096002013 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 882096002014 putative metal binding site; other site 882096002015 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 882096002016 binding surface 882096002017 TPR motif; other site 882096002018 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 882096002019 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 882096002020 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 882096002021 active site 882096002022 phosphorylation site [posttranslational modification] 882096002023 intermolecular recognition site; other site 882096002024 dimerization interface [polypeptide binding]; other site 882096002025 flagellin; Provisional; Region: PRK12805 882096002026 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882096002027 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 882096002028 Response regulator receiver domain; Region: Response_reg; pfam00072 882096002029 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 882096002030 active site 882096002031 phosphorylation site [posttranslational modification] 882096002032 intermolecular recognition site; other site 882096002033 dimerization interface [polypeptide binding]; other site 882096002034 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 882096002035 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 882096002036 putative binding surface; other site 882096002037 active site 882096002038 P2 response regulator binding domain; Region: P2; pfam07194 882096002039 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 882096002040 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 882096002041 ATP binding site [chemical binding]; other site 882096002042 Mg2+ binding site [ion binding]; other site 882096002043 G-X-G motif; other site 882096002044 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 882096002045 flagellar motor switch protein; Validated; Region: PRK06788 882096002046 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 882096002047 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK11911 882096002048 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 882096002049 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 882096002050 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 882096002051 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 882096002052 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882096002053 flagellar motor switch protein; Validated; Region: PRK06789 882096002054 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 882096002055 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 882096002056 flagellar motor switch protein; Reviewed; Region: PRK06782 882096002057 CheC-like family; Region: CheC; pfam04509 882096002058 CheC-like family; Region: CheC; pfam04509 882096002059 Chemotaxis phosphatase CheX; Region: CheX; cl15816 882096002060 CheC-like family; Region: CheC; pfam04509 882096002061 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 882096002062 Protein of unknown function (DUF327); Region: DUF327; pfam03885 882096002063 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06799 882096002064 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882096002065 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08073 882096002066 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882096002067 flagellar capping protein; Validated; Region: fliD; PRK06798 882096002068 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 882096002069 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 882096002070 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 882096002071 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06797 882096002072 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 882096002073 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 882096002074 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882096002075 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK01699 882096002076 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 882096002077 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 882096002078 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 882096002079 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 882096002080 FliG C-terminal domain; Region: FliG_C; pfam01706 882096002081 flagellar assembly protein H; Validated; Region: fliH; PRK06800 882096002082 Flagellar assembly protein FliH; Region: FliH; pfam02108 882096002083 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06793 882096002084 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 882096002085 Walker A motif; other site 882096002086 ATP binding site [chemical binding]; other site 882096002087 Walker B motif; other site 882096002088 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 882096002089 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 882096002090 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882096002091 catalytic residue [active] 882096002092 Predicted transcriptional regulators [Transcription]; Region: COG1695 882096002093 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 882096002094 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 882096002095 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 882096002096 pyruvate oxidase; Provisional; Region: PRK08611 882096002097 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 882096002098 PYR/PP interface [polypeptide binding]; other site 882096002099 dimer interface [polypeptide binding]; other site 882096002100 tetramer interface [polypeptide binding]; other site 882096002101 TPP binding site [chemical binding]; other site 882096002102 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882096002103 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 882096002104 TPP-binding site [chemical binding]; other site 882096002105 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 882096002106 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 882096002107 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 882096002108 dimerization interface [polypeptide binding]; other site 882096002109 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882096002110 dimer interface [polypeptide binding]; other site 882096002111 putative CheW interface [polypeptide binding]; other site 882096002112 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 882096002113 putative active site [active] 882096002114 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 882096002115 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 882096002116 glutaminase active site [active] 882096002117 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 882096002118 dimer interface [polypeptide binding]; other site 882096002119 active site 882096002120 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 882096002121 dimer interface [polypeptide binding]; other site 882096002122 active site 882096002123 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 882096002124 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 882096002125 active site 882096002126 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 882096002127 GIY-YIG motif/motif A; other site 882096002128 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096002129 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096002130 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002131 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882096002132 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 882096002133 non-specific DNA binding site [nucleotide binding]; other site 882096002134 salt bridge; other site 882096002135 sequence-specific DNA binding site [nucleotide binding]; other site 882096002136 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096002137 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096002138 DNA binding site [nucleotide binding] 882096002139 domain linker motif; other site 882096002140 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 882096002141 ligand binding site [chemical binding]; other site 882096002142 dimerization interface [polypeptide binding]; other site 882096002143 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 882096002144 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 882096002145 substrate binding site [chemical binding]; other site 882096002146 hexamer interface [polypeptide binding]; other site 882096002147 metal binding site [ion binding]; metal-binding site 882096002148 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 882096002149 BtpA family; Region: BtpA; cl00440 882096002150 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 882096002151 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 882096002152 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 882096002153 active site turn [active] 882096002154 phosphorylation site [posttranslational modification] 882096002155 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 882096002156 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 882096002157 HPr interaction site; other site 882096002158 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882096002159 active site 882096002160 phosphorylation site [posttranslational modification] 882096002161 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096002162 beta-galactosidase; Region: BGL; TIGR03356 882096002163 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096002164 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096002165 ligand binding site [chemical binding]; other site 882096002166 flexible hinge region; other site 882096002167 Predicted transcriptional regulators [Transcription]; Region: COG1725 882096002168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096002169 DNA-binding site [nucleotide binding]; DNA binding site 882096002170 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 882096002171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096002172 Walker A/P-loop; other site 882096002173 ATP binding site [chemical binding]; other site 882096002174 Q-loop/lid; other site 882096002175 ABC transporter signature motif; other site 882096002176 Walker B; other site 882096002177 D-loop; other site 882096002178 H-loop/switch region; other site 882096002179 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096002180 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096002181 Walker A/P-loop; other site 882096002182 ATP binding site [chemical binding]; other site 882096002183 Q-loop/lid; other site 882096002184 ABC transporter signature motif; other site 882096002185 Walker B; other site 882096002186 D-loop; other site 882096002187 H-loop/switch region; other site 882096002188 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 882096002189 FtsX-like permease family; Region: FtsX; pfam02687 882096002190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882096002191 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 882096002192 non-specific DNA binding site [nucleotide binding]; other site 882096002193 salt bridge; other site 882096002194 sequence-specific DNA binding site [nucleotide binding]; other site 882096002195 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 882096002196 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096002197 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 882096002198 ligand binding site [chemical binding]; other site 882096002199 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 882096002200 non-specific DNA interactions [nucleotide binding]; other site 882096002201 DNA binding site [nucleotide binding] 882096002202 sequence specific DNA binding site [nucleotide binding]; other site 882096002203 putative cAMP binding site [chemical binding]; other site 882096002204 SnoaL-like domain; Region: SnoaL_4; pfam13577 882096002205 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 882096002206 active site 882096002207 catalytic triad [active] 882096002208 oxyanion hole [active] 882096002209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096002210 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882096002211 Walker A/P-loop; other site 882096002212 ATP binding site [chemical binding]; other site 882096002213 Q-loop/lid; other site 882096002214 ABC transporter signature motif; other site 882096002215 Walker B; other site 882096002216 D-loop; other site 882096002217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882096002218 H-loop/switch region; other site 882096002219 active site 882096002220 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 882096002221 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 882096002222 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 882096002223 Zn binding site [ion binding]; other site 882096002224 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 882096002225 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096002226 Zn binding site [ion binding]; other site 882096002227 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 882096002228 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096002229 Zn binding site [ion binding]; other site 882096002230 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 882096002231 Zn binding site [ion binding]; other site 882096002232 Predicted esterase [General function prediction only]; Region: COG0400 882096002233 putative hydrolase; Provisional; Region: PRK11460 882096002234 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 882096002235 GTPases [General function prediction only]; Region: HflX; COG2262 882096002236 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 882096002237 HflX GTPase family; Region: HflX; cd01878 882096002238 G1 box; other site 882096002239 GTP/Mg2+ binding site [chemical binding]; other site 882096002240 Switch I region; other site 882096002241 G2 box; other site 882096002242 G3 box; other site 882096002243 Switch II region; other site 882096002244 G4 box; other site 882096002245 G5 box; other site 882096002246 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 882096002247 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 882096002248 putative active site [active] 882096002249 putative metal binding site [ion binding]; other site 882096002250 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 882096002251 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 882096002252 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 882096002253 Uncharacterized conserved protein [Function unknown]; Region: COG3538 882096002254 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 882096002255 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 882096002256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096002257 dimer interface [polypeptide binding]; other site 882096002258 conserved gate region; other site 882096002259 putative PBP binding loops; other site 882096002260 ABC-ATPase subunit interface; other site 882096002261 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882096002262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096002263 dimer interface [polypeptide binding]; other site 882096002264 conserved gate region; other site 882096002265 putative PBP binding loops; other site 882096002266 ABC-ATPase subunit interface; other site 882096002267 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882096002268 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 882096002269 Predicted glycosyl hydrolase [Carbohydrate transport and metabolism]; Region: COG4833 882096002270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096002271 DNA-binding site [nucleotide binding]; DNA binding site 882096002272 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096002273 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 882096002274 ligand binding site [chemical binding]; other site 882096002275 dimerization interface [polypeptide binding]; other site 882096002276 Transcriptional regulators [Transcription]; Region: GntR; COG1802 882096002277 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096002278 DNA-binding site [nucleotide binding]; DNA binding site 882096002279 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 882096002280 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 882096002281 putative NADP binding site [chemical binding]; other site 882096002282 putative dimer interface [polypeptide binding]; other site 882096002283 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 882096002284 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 882096002285 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096002286 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096002287 nucleotide binding site [chemical binding]; other site 882096002288 Predicted membrane protein [Function unknown]; Region: COG4811 882096002289 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 882096002290 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 882096002291 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 882096002292 active site 882096002293 phosphorylation site [posttranslational modification] 882096002294 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 882096002295 active pocket/dimerization site; other site 882096002296 active site 882096002297 phosphorylation site [posttranslational modification] 882096002298 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 882096002299 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 882096002300 Walker A motif; other site 882096002301 ATP binding site [chemical binding]; other site 882096002302 Walker B motif; other site 882096002303 arginine finger; other site 882096002304 Transcriptional antiterminator [Transcription]; Region: COG3933 882096002305 PRD domain; Region: PRD; pfam00874 882096002306 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 882096002307 active pocket/dimerization site; other site 882096002308 active site 882096002309 phosphorylation site [posttranslational modification] 882096002310 PRD domain; Region: PRD; pfam00874 882096002311 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 882096002312 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 882096002313 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 882096002314 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 882096002315 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 882096002316 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 882096002317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 882096002318 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 882096002319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 882096002320 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 882096002321 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 882096002322 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 882096002323 putative deacylase active site [active] 882096002324 Predicted amidohydrolase [General function prediction only]; Region: COG0388 882096002325 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 882096002326 active site 882096002327 catalytic triad [active] 882096002328 dimer interface [polypeptide binding]; other site 882096002329 Protein of unknown function (DUF554); Region: DUF554; pfam04474 882096002330 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 882096002331 NADH(P)-binding; Region: NAD_binding_10; pfam13460 882096002332 NAD binding site [chemical binding]; other site 882096002333 substrate binding site [chemical binding]; other site 882096002334 putative active site [active] 882096002335 Predicted permeases [General function prediction only]; Region: RarD; COG2962 882096002336 EamA-like transporter family; Region: EamA; pfam00892 882096002337 Uncharacterized conserved protein [Function unknown]; Region: COG2353 882096002338 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882096002339 MarR family; Region: MarR_2; pfam12802 882096002340 lysine transporter; Provisional; Region: PRK10836 882096002341 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 882096002342 PAS domain; Region: PAS_9; pfam13426 882096002343 putative active site [active] 882096002344 heme pocket [chemical binding]; other site 882096002345 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 882096002346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 882096002347 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096002348 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096002349 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096002350 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096002351 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096002352 LRR adjacent; Region: LRR_adjacent; pfam08191 882096002353 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 882096002354 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 882096002355 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 882096002356 synthetase active site [active] 882096002357 NTP binding site [chemical binding]; other site 882096002358 metal binding site [ion binding]; metal-binding site 882096002359 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 882096002360 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 882096002361 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882096002362 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 882096002363 non-specific DNA binding site [nucleotide binding]; other site 882096002364 salt bridge; other site 882096002365 sequence-specific DNA binding site [nucleotide binding]; other site 882096002366 Cupin domain; Region: Cupin_2; pfam07883 882096002367 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 882096002368 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 882096002369 Walker A/P-loop; other site 882096002370 ATP binding site [chemical binding]; other site 882096002371 Q-loop/lid; other site 882096002372 ABC transporter signature motif; other site 882096002373 Walker B; other site 882096002374 D-loop; other site 882096002375 H-loop/switch region; other site 882096002376 TOBE domain; Region: TOBE_2; pfam08402 882096002377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 882096002378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096002379 putative PBP binding loops; other site 882096002380 ABC-ATPase subunit interface; other site 882096002381 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 882096002382 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096002383 dimer interface [polypeptide binding]; other site 882096002384 conserved gate region; other site 882096002385 putative PBP binding loops; other site 882096002386 ABC-ATPase subunit interface; other site 882096002387 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 882096002388 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 882096002389 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 882096002390 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 882096002391 active site 882096002392 zinc binding site [ion binding]; other site 882096002393 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 882096002394 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096002395 Zn2+ binding site [ion binding]; other site 882096002396 Mg2+ binding site [ion binding]; other site 882096002397 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096002398 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096002399 nucleotide binding site [chemical binding]; other site 882096002400 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 882096002401 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 882096002402 FMN binding site [chemical binding]; other site 882096002403 substrate binding site [chemical binding]; other site 882096002404 putative catalytic residue [active] 882096002405 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096002406 MarR family; Region: MarR_2; pfam12802 882096002407 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 882096002408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096002409 Coenzyme A binding pocket [chemical binding]; other site 882096002410 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 882096002411 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 882096002412 dimer interface [polypeptide binding]; other site 882096002413 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096002414 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 882096002415 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 882096002416 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882096002417 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 882096002418 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 882096002419 motif II; other site 882096002420 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 882096002421 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 882096002422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096002423 Coenzyme A binding pocket [chemical binding]; other site 882096002424 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 882096002425 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 882096002426 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 882096002427 DNA binding residues [nucleotide binding] 882096002428 putative dimer interface [polypeptide binding]; other site 882096002429 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 882096002430 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096002431 active site 882096002432 catalytic tetrad [active] 882096002433 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 882096002434 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 882096002435 homodimer interface [polypeptide binding]; other site 882096002436 catalytic residues [active] 882096002437 NAD binding site [chemical binding]; other site 882096002438 substrate binding pocket [chemical binding]; other site 882096002439 flexible flap; other site 882096002440 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 882096002441 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 882096002442 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 882096002443 PhoU domain; Region: PhoU; pfam01895 882096002444 PhoU domain; Region: PhoU; pfam01895 882096002445 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 882096002446 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 882096002447 dimer interface [polypeptide binding]; other site 882096002448 PYR/PP interface [polypeptide binding]; other site 882096002449 TPP binding site [chemical binding]; other site 882096002450 substrate binding site [chemical binding]; other site 882096002451 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 882096002452 Domain of unknown function; Region: EKR; smart00890 882096002453 4Fe-4S binding domain; Region: Fer4_6; pfam12837 882096002454 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 882096002455 TPP-binding site [chemical binding]; other site 882096002456 dimer interface [polypeptide binding]; other site 882096002457 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 882096002458 Predicted permeases [General function prediction only]; Region: COG0679 882096002459 Helix-turn-helix domain; Region: HTH_28; pfam13518 882096002460 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 882096002461 non-specific DNA binding site [nucleotide binding]; other site 882096002462 salt bridge; other site 882096002463 sequence-specific DNA binding site [nucleotide binding]; other site 882096002464 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 882096002465 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096002466 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096002467 Predicted membrane protein [Function unknown]; Region: COG3223 882096002468 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096002469 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096002470 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 882096002471 Walker A/P-loop; other site 882096002472 ATP binding site [chemical binding]; other site 882096002473 Q-loop/lid; other site 882096002474 ABC transporter signature motif; other site 882096002475 Walker B; other site 882096002476 D-loop; other site 882096002477 H-loop/switch region; other site 882096002478 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 882096002479 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 882096002480 putative substrate translocation pore; other site 882096002481 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 882096002482 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 882096002483 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096002484 putative substrate translocation pore; other site 882096002485 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096002486 MarR family; Region: MarR; pfam01047 882096002487 MarR family; Region: MarR_2; cl17246 882096002488 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 882096002489 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 882096002490 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882096002491 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 882096002492 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 882096002493 motif II; other site 882096002494 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 882096002495 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002496 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002497 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002498 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002499 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002500 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002501 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096002502 Predicted membrane protein [Function unknown]; Region: COG3326 882096002503 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 882096002504 homotrimer interaction site [polypeptide binding]; other site 882096002505 putative active site [active] 882096002506 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 882096002507 substrate binding site [chemical binding]; other site 882096002508 zinc-binding site [ion binding]; other site 882096002509 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 882096002510 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 882096002511 GIY-YIG motif/motif A; other site 882096002512 active site 882096002513 catalytic site [active] 882096002514 putative DNA binding site [nucleotide binding]; other site 882096002515 metal binding site [ion binding]; metal-binding site 882096002516 UvrB/uvrC motif; Region: UVR; pfam02151 882096002517 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 882096002518 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882096002519 substrate binding pocket [chemical binding]; other site 882096002520 membrane-bound complex binding site; other site 882096002521 hinge residues; other site 882096002522 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882096002523 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096002524 dimer interface [polypeptide binding]; other site 882096002525 conserved gate region; other site 882096002526 putative PBP binding loops; other site 882096002527 ABC-ATPase subunit interface; other site 882096002528 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882096002529 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882096002530 Walker A/P-loop; other site 882096002531 ATP binding site [chemical binding]; other site 882096002532 Q-loop/lid; other site 882096002533 ABC transporter signature motif; other site 882096002534 Walker B; other site 882096002535 D-loop; other site 882096002536 H-loop/switch region; other site 882096002537 amidase; Provisional; Region: PRK11910 882096002538 Amidase; Region: Amidase; cl11426 882096002539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096002540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096002541 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 882096002542 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 882096002543 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 882096002544 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 882096002545 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 882096002546 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 882096002547 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882096002548 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882096002549 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 882096002550 Esterase/lipase [General function prediction only]; Region: COG1647 882096002551 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096002552 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096002553 DNA binding site [nucleotide binding] 882096002554 domain linker motif; other site 882096002555 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_1; cd06277 882096002556 putative dimerization interface [polypeptide binding]; other site 882096002557 putative ligand binding site [chemical binding]; other site 882096002558 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882096002559 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 882096002560 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 882096002561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096002562 dimer interface [polypeptide binding]; other site 882096002563 conserved gate region; other site 882096002564 putative PBP binding loops; other site 882096002565 ABC-ATPase subunit interface; other site 882096002566 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882096002567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096002568 dimer interface [polypeptide binding]; other site 882096002569 conserved gate region; other site 882096002570 ABC-ATPase subunit interface; other site 882096002571 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 882096002572 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 882096002573 Ca binding site [ion binding]; other site 882096002574 active site 882096002575 catalytic site [active] 882096002576 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 882096002577 Predicted glycosylase [Carbohydrate transport and metabolism]; Region: COG2152 882096002578 active site 882096002579 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 882096002580 active site 882096002581 substrate binding site [chemical binding]; other site 882096002582 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 882096002583 metal binding site [ion binding]; metal-binding site 882096002584 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 882096002585 DEAD-like helicases superfamily; Region: DEXDc; smart00487 882096002586 ATP binding site [chemical binding]; other site 882096002587 Mg++ binding site [ion binding]; other site 882096002588 motif III; other site 882096002589 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 882096002590 nucleotide binding region [chemical binding]; other site 882096002591 ATP-binding site [chemical binding]; other site 882096002592 Predicted membrane protein [Function unknown]; Region: COG4708 882096002593 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 882096002594 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; pfam10078 882096002595 Predicted transcriptional regulators [Transcription]; Region: COG1733 882096002596 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 882096002597 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 882096002598 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 882096002599 putative substrate translocation pore; other site 882096002600 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096002601 PRD domain; Region: PRD; pfam00874 882096002602 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096002603 active site 882096002604 P-loop; other site 882096002605 phosphorylation site [posttranslational modification] 882096002606 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 882096002607 active site 882096002608 phosphorylation site [posttranslational modification] 882096002609 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096002610 methionine cluster; other site 882096002611 active site 882096002612 phosphorylation site [posttranslational modification] 882096002613 metal binding site [ion binding]; metal-binding site 882096002614 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096002615 active site 882096002616 P-loop; other site 882096002617 phosphorylation site [posttranslational modification] 882096002618 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096002619 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096002620 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 882096002621 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 882096002622 active site 882096002623 trimer interface [polypeptide binding]; other site 882096002624 allosteric site; other site 882096002625 active site lid [active] 882096002626 hexamer (dimer of trimers) interface [polypeptide binding]; other site 882096002627 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096002628 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 882096002629 active site 882096002630 catalytic tetrad [active] 882096002631 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 882096002632 Collagen binding domain; Region: Collagen_bind; pfam05737 882096002633 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096002634 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096002635 Uncharacterized conserved protein [Function unknown]; Region: COG3402 882096002636 Predicted membrane protein [Function unknown]; Region: COG3428 882096002637 Bacterial PH domain; Region: DUF304; pfam03703 882096002638 Bacterial PH domain; Region: DUF304; pfam03703 882096002639 Bacterial PH domain; Region: DUF304; pfam03703 882096002640 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 882096002641 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 882096002642 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 882096002643 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 882096002644 active site 882096002645 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882096002646 dimer interface [polypeptide binding]; other site 882096002647 substrate binding site [chemical binding]; other site 882096002648 catalytic residues [active] 882096002649 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 882096002650 PemK-like protein; Region: PemK; pfam02452 882096002651 Rsbr N terminal; Region: Rsbr_N; pfam08678 882096002652 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 882096002653 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 882096002654 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 882096002655 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 882096002656 ATP binding site [chemical binding]; other site 882096002657 Mg2+ binding site [ion binding]; other site 882096002658 G-X-G motif; other site 882096002659 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 882096002660 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 882096002661 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 882096002662 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 882096002663 anti sigma factor interaction site; other site 882096002664 regulatory phosphorylation site [posttranslational modification]; other site 882096002665 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 882096002666 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 882096002667 ATP binding site [chemical binding]; other site 882096002668 Mg2+ binding site [ion binding]; other site 882096002669 G-X-G motif; other site 882096002670 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 882096002671 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882096002672 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882096002673 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 882096002674 DNA binding residues [nucleotide binding] 882096002675 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 882096002676 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 882096002677 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 882096002678 Sulfate transporter family; Region: Sulfate_transp; pfam00916 882096002679 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 882096002680 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 882096002681 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 882096002682 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 882096002683 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 882096002684 RNA binding site [nucleotide binding]; other site 882096002685 hypothetical protein; Provisional; Region: PRK04351 882096002686 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 882096002687 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 882096002688 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 882096002689 Uncharacterized conserved protein [Function unknown]; Region: COG5646 882096002690 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096002691 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096002692 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096002693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096002694 DNA-binding site [nucleotide binding]; DNA binding site 882096002695 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 882096002696 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 882096002697 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 882096002698 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 882096002699 glutathione reductase; Validated; Region: PRK06116 882096002700 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 882096002701 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096002702 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882096002703 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 882096002704 catalytic core [active] 882096002705 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882096002706 Domain of unknown function DUF20; Region: UPF0118; pfam01594 882096002707 Predicted transcriptional regulators [Transcription]; Region: COG1725 882096002708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096002709 DNA-binding site [nucleotide binding]; DNA binding site 882096002710 Predicted membrane protein [General function prediction only]; Region: COG4194 882096002711 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 882096002712 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 882096002713 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 882096002714 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882096002715 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 882096002716 tetramerization interface [polypeptide binding]; other site 882096002717 NAD(P) binding site [chemical binding]; other site 882096002718 catalytic residues [active] 882096002719 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 882096002720 active site 882096002721 P-loop; other site 882096002722 phosphorylation site [posttranslational modification] 882096002723 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096002724 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096002725 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096002726 methionine cluster; other site 882096002727 active site 882096002728 phosphorylation site [posttranslational modification] 882096002729 metal binding site [ion binding]; metal-binding site 882096002730 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096002731 beta-galactosidase; Region: BGL; TIGR03356 882096002732 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096002733 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096002734 PRD domain; Region: PRD; pfam00874 882096002735 PRD domain; Region: PRD; pfam00874 882096002736 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 882096002737 active site 882096002738 phosphorylation site [posttranslational modification] 882096002739 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096002740 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882096002741 ABC transporter; Region: ABC_tran_2; pfam12848 882096002742 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096002743 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 882096002744 Predicted permeases [General function prediction only]; Region: COG0701 882096002745 Predicted membrane protein [Function unknown]; Region: COG3689 882096002746 pantothenate kinase; Provisional; Region: PRK05439 882096002747 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 882096002748 ATP-binding site [chemical binding]; other site 882096002749 CoA-binding site [chemical binding]; other site 882096002750 Mg2+-binding site [ion binding]; other site 882096002751 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 882096002752 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882096002753 Walker A/P-loop; other site 882096002754 ATP binding site [chemical binding]; other site 882096002755 Q-loop/lid; other site 882096002756 ABC transporter signature motif; other site 882096002757 Walker B; other site 882096002758 D-loop; other site 882096002759 H-loop/switch region; other site 882096002760 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 882096002761 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 882096002762 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096002763 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096002764 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 882096002765 Domain of unknown function (DUF373); Region: DUF373; cl12079 882096002766 Sulfatase; Region: Sulfatase; pfam00884 882096002767 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 882096002768 active site 882096002769 DNA binding site [nucleotide binding] 882096002770 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 882096002771 active site 882096002772 catalytic site [active] 882096002773 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 882096002774 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 882096002775 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 882096002776 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 882096002777 Uncharacterized conserved protein [Function unknown]; Region: COG0398 882096002778 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 882096002779 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 882096002780 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 882096002781 Ligand binding site; other site 882096002782 Putative Catalytic site; other site 882096002783 DXD motif; other site 882096002784 epoxyqueuosine reductase; Region: TIGR00276 882096002785 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 882096002786 A new structural DNA glycosylase; Region: AlkD_like; cl11434 882096002787 active site 882096002788 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 882096002789 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 882096002790 dimer interface [polypeptide binding]; other site 882096002791 FMN binding site [chemical binding]; other site 882096002792 NADPH bind site [chemical binding]; other site 882096002793 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 882096002794 Low molecular weight phosphatase family; Region: LMWPc; cd00115 882096002795 active site 882096002796 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 882096002797 HSP90 family protein; Provisional; Region: PRK14083 882096002798 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 882096002799 ATP binding site [chemical binding]; other site 882096002800 Mg2+ binding site [ion binding]; other site 882096002801 G-X-G motif; other site 882096002802 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 882096002803 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 882096002804 dimerization interface [polypeptide binding]; other site 882096002805 DPS ferroxidase diiron center [ion binding]; other site 882096002806 ion pore; other site 882096002807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 882096002808 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 882096002809 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882096002810 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 882096002811 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 882096002812 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 882096002813 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 882096002814 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 882096002815 putative substrate translocation pore; other site 882096002816 Transcriptional regulators [Transcription]; Region: FadR; COG2186 882096002817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096002818 DNA-binding site [nucleotide binding]; DNA binding site 882096002819 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 882096002820 Domain of unknown function DUF20; Region: UPF0118; pfam01594 882096002821 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882096002822 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 882096002823 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 882096002824 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 882096002825 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 882096002826 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 882096002827 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 882096002828 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 882096002829 active site 882096002830 dimer interface [polypeptide binding]; other site 882096002831 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 882096002832 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 882096002833 active site 882096002834 trimer interface [polypeptide binding]; other site 882096002835 allosteric site; other site 882096002836 active site lid [active] 882096002837 hexamer (dimer of trimers) interface [polypeptide binding]; other site 882096002838 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096002839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096002840 DNA-binding site [nucleotide binding]; DNA binding site 882096002841 UTRA domain; Region: UTRA; pfam07702 882096002842 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 882096002843 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 882096002844 Mg++ binding site [ion binding]; other site 882096002845 putative catalytic motif [active] 882096002846 substrate binding site [chemical binding]; other site 882096002847 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 882096002848 Peptidase family U32; Region: Peptidase_U32; pfam01136 882096002849 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 882096002850 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 882096002851 Peptidase family U32; Region: Peptidase_U32; pfam01136 882096002852 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 882096002853 heat shock protein HtpX; Provisional; Region: PRK04897 882096002854 Thioredoxin; Region: Thioredoxin_5; pfam13743 882096002855 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 882096002856 Thioredoxin; Region: Thioredoxin_5; pfam13743 882096002857 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 882096002858 putative active site [active] 882096002859 putative metal binding residues [ion binding]; other site 882096002860 signature motif; other site 882096002861 putative triphosphate binding site [ion binding]; other site 882096002862 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 882096002863 TPR motif; other site 882096002864 binding surface 882096002865 TPR repeat; Region: TPR_11; pfam13414 882096002866 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 882096002867 synthetase active site [active] 882096002868 NTP binding site [chemical binding]; other site 882096002869 metal binding site [ion binding]; metal-binding site 882096002870 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 882096002871 ATP-NAD kinase; Region: NAD_kinase; pfam01513 882096002872 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 882096002873 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 882096002874 active site 882096002875 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 882096002876 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 882096002877 NAD binding site [chemical binding]; other site 882096002878 homotetramer interface [polypeptide binding]; other site 882096002879 homodimer interface [polypeptide binding]; other site 882096002880 substrate binding site [chemical binding]; other site 882096002881 active site 882096002882 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 882096002883 DltD N-terminal region; Region: DltD_N; pfam04915 882096002884 DltD central region; Region: DltD_M; pfam04918 882096002885 DltD C-terminal region; Region: DltD_C; pfam04914 882096002886 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 882096002887 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 882096002888 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 882096002889 acyl-activating enzyme (AAE) consensus motif; other site 882096002890 AMP binding site [chemical binding]; other site 882096002891 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882096002892 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 882096002893 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 882096002894 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096002895 active site 882096002896 dimer interface [polypeptide binding]; other site 882096002897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096002898 Coenzyme A binding pocket [chemical binding]; other site 882096002899 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 882096002900 Putative esterase; Region: Esterase; pfam00756 882096002901 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 882096002902 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 882096002903 homodimer interface [polypeptide binding]; other site 882096002904 substrate-cofactor binding pocket; other site 882096002905 catalytic residue [active] 882096002906 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 882096002907 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096002908 Walker A/P-loop; other site 882096002909 ATP binding site [chemical binding]; other site 882096002910 Q-loop/lid; other site 882096002911 ABC transporter signature motif; other site 882096002912 Walker B; other site 882096002913 D-loop; other site 882096002914 H-loop/switch region; other site 882096002915 ABC-2 type transporter; Region: ABC2_membrane; cl17235 882096002916 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 882096002917 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 882096002918 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096002919 putative substrate translocation pore; other site 882096002920 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 882096002921 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 882096002922 putative oligomer interface [polypeptide binding]; other site 882096002923 putative active site [active] 882096002924 metal binding site [ion binding]; metal-binding site 882096002925 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 882096002926 catalytic residues [active] 882096002927 dimer interface [polypeptide binding]; other site 882096002928 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 882096002929 LytTr DNA-binding domain; Region: LytTR; pfam04397 882096002930 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882096002931 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096002932 Walker A/P-loop; other site 882096002933 ATP binding site [chemical binding]; other site 882096002934 Q-loop/lid; other site 882096002935 ABC transporter signature motif; other site 882096002936 Walker B; other site 882096002937 D-loop; other site 882096002938 H-loop/switch region; other site 882096002939 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 882096002940 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 882096002941 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 882096002942 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 882096002943 G1 box; other site 882096002944 putative GEF interaction site [polypeptide binding]; other site 882096002945 GTP/Mg2+ binding site [chemical binding]; other site 882096002946 Switch I region; other site 882096002947 G2 box; other site 882096002948 G3 box; other site 882096002949 Switch II region; other site 882096002950 G4 box; other site 882096002951 G5 box; other site 882096002952 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 882096002953 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096002954 MarR family; Region: MarR_2; cl17246 882096002955 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 882096002956 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 882096002957 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 882096002958 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 882096002959 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 882096002960 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 882096002961 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 882096002962 Acyltransferase family; Region: Acyl_transf_3; pfam01757 882096002963 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 882096002964 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 882096002965 DNA binding site [nucleotide binding] 882096002966 active site 882096002967 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 882096002968 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882096002969 Walker A motif; other site 882096002970 ATP binding site [chemical binding]; other site 882096002971 Walker B motif; other site 882096002972 arginine finger; other site 882096002973 UvrB/uvrC motif; Region: UVR; pfam02151 882096002974 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 882096002975 Walker A motif; other site 882096002976 ATP binding site [chemical binding]; other site 882096002977 Walker B motif; other site 882096002978 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882096002979 CAAX protease self-immunity; Region: Abi; pfam02517 882096002980 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 882096002981 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882096002982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4873 882096002983 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 882096002984 dimerization domain swap beta strand [polypeptide binding]; other site 882096002985 regulatory protein interface [polypeptide binding]; other site 882096002986 active site 882096002987 regulatory phosphorylation site [posttranslational modification]; other site 882096002988 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 882096002989 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 882096002990 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882096002991 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 882096002992 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 882096002993 Uncharacterized conserved protein [Function unknown]; Region: COG1434 882096002994 putative active site [active] 882096002995 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 882096002996 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 882096002997 aminotransferase A; Validated; Region: PRK07683 882096002998 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 882096002999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096003000 homodimer interface [polypeptide binding]; other site 882096003001 catalytic residue [active] 882096003002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 882096003003 FOG: CBS domain [General function prediction only]; Region: COG0517 882096003004 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 882096003005 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096003006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096003007 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 882096003008 dimerization interface [polypeptide binding]; other site 882096003009 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 882096003010 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 882096003011 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 882096003012 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 882096003013 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 882096003014 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 882096003015 metal binding site [ion binding]; metal-binding site 882096003016 putative dimer interface [polypeptide binding]; other site 882096003017 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 882096003018 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 882096003019 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882096003020 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 882096003021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096003022 Walker A/P-loop; other site 882096003023 ATP binding site [chemical binding]; other site 882096003024 Q-loop/lid; other site 882096003025 ABC transporter signature motif; other site 882096003026 Walker B; other site 882096003027 D-loop; other site 882096003028 H-loop/switch region; other site 882096003029 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 882096003030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096003031 dimer interface [polypeptide binding]; other site 882096003032 conserved gate region; other site 882096003033 putative PBP binding loops; other site 882096003034 ABC-ATPase subunit interface; other site 882096003035 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 882096003036 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 882096003037 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 882096003038 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 882096003039 HPr interaction site; other site 882096003040 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882096003041 active site 882096003042 phosphorylation site [posttranslational modification] 882096003043 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 882096003044 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 882096003045 S1 domain; Region: S1_2; pfam13509 882096003046 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 882096003047 RNA binding site [nucleotide binding]; other site 882096003048 Predicted membrane protein [Function unknown]; Region: COG4758 882096003049 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 882096003050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 882096003051 Histidine kinase; Region: HisKA_3; pfam07730 882096003052 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 882096003053 ATP binding site [chemical binding]; other site 882096003054 Mg2+ binding site [ion binding]; other site 882096003055 G-X-G motif; other site 882096003056 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882096003057 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 882096003058 active site 882096003059 phosphorylation site [posttranslational modification] 882096003060 intermolecular recognition site; other site 882096003061 dimerization interface [polypeptide binding]; other site 882096003062 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 882096003063 DNA binding residues [nucleotide binding] 882096003064 dimerization interface [polypeptide binding]; other site 882096003065 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 882096003066 TrkA-N domain; Region: TrkA_N; pfam02254 882096003067 TrkA-C domain; Region: TrkA_C; pfam02080 882096003068 Predicted membrane protein [Function unknown]; Region: COG1289 882096003069 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 882096003070 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 882096003071 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 882096003072 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 882096003073 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 882096003074 hypothetical protein; Provisional; Region: PRK13667 882096003075 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096003076 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 882096003077 active site 882096003078 motif I; other site 882096003079 motif II; other site 882096003080 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 882096003081 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096003082 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096003083 DNA binding site [nucleotide binding] 882096003084 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 882096003085 ligand binding site [chemical binding]; other site 882096003086 dimerization interface [polypeptide binding]; other site 882096003087 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 882096003088 hexamer (dimer of trimers) interface [polypeptide binding]; other site 882096003089 trimer interface [polypeptide binding]; other site 882096003090 substrate binding site [chemical binding]; other site 882096003091 Mn binding site [ion binding]; other site 882096003092 transketolase; Reviewed; Region: PRK05899 882096003093 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 882096003094 TPP-binding site [chemical binding]; other site 882096003095 dimer interface [polypeptide binding]; other site 882096003096 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 882096003097 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 882096003098 PYR/PP interface [polypeptide binding]; other site 882096003099 dimer interface [polypeptide binding]; other site 882096003100 TPP binding site [chemical binding]; other site 882096003101 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882096003102 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 882096003103 Uncharacterized subgroup; belongs to the glycerol kinases subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GK_1; cd10427 882096003104 N- and C-terminal domain interface [polypeptide binding]; other site 882096003105 active site 882096003106 MgATP binding site [chemical binding]; other site 882096003107 catalytic site [active] 882096003108 metal binding site [ion binding]; metal-binding site 882096003109 putative glycerol binding site [chemical binding]; other site 882096003110 putative homotetramer interface [polypeptide binding]; other site 882096003111 putative homodimer interface [polypeptide binding]; other site 882096003112 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 882096003113 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 882096003114 active site turn [active] 882096003115 phosphorylation site [posttranslational modification] 882096003116 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 882096003117 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 882096003118 HPr interaction site; other site 882096003119 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882096003120 active site 882096003121 phosphorylation site [posttranslational modification] 882096003122 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 882096003123 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 882096003124 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 882096003125 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 882096003126 GTP binding site; other site 882096003127 ATP-binding cassette domain of the molybdenum transport system; Region: ABC_ModC_molybdenum_transporter; cd03297 882096003128 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 882096003129 Walker A/P-loop; other site 882096003130 ATP binding site [chemical binding]; other site 882096003131 Q-loop/lid; other site 882096003132 ABC transporter signature motif; other site 882096003133 Walker B; other site 882096003134 D-loop; other site 882096003135 H-loop/switch region; other site 882096003136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096003137 dimer interface [polypeptide binding]; other site 882096003138 conserved gate region; other site 882096003139 putative PBP binding loops; other site 882096003140 ABC-ATPase subunit interface; other site 882096003141 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 882096003142 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 882096003143 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 882096003144 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 882096003145 dimer interface [polypeptide binding]; other site 882096003146 putative functional site; other site 882096003147 putative MPT binding site; other site 882096003148 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 882096003149 Walker A motif; other site 882096003150 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 882096003151 MoaE homodimer interface [polypeptide binding]; other site 882096003152 MoaD interaction [polypeptide binding]; other site 882096003153 active site residues [active] 882096003154 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 882096003155 MoaE interaction surface [polypeptide binding]; other site 882096003156 MoeB interaction surface [polypeptide binding]; other site 882096003157 thiocarboxylated glycine; other site 882096003158 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 882096003159 trimer interface [polypeptide binding]; other site 882096003160 dimer interface [polypeptide binding]; other site 882096003161 putative active site [active] 882096003162 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 882096003163 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 882096003164 FeS/SAM binding site; other site 882096003165 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 882096003166 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 882096003167 MPT binding site; other site 882096003168 trimer interface [polypeptide binding]; other site 882096003169 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 882096003170 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 882096003171 ATP binding site [chemical binding]; other site 882096003172 substrate interface [chemical binding]; other site 882096003173 Flavin Reductases; Region: FlaRed; cl00801 882096003174 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 882096003175 active site 882096003176 catalytic residues [active] 882096003177 metal binding site [ion binding]; metal-binding site 882096003178 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 882096003179 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 882096003180 TPP-binding site [chemical binding]; other site 882096003181 tetramer interface [polypeptide binding]; other site 882096003182 heterodimer interface [polypeptide binding]; other site 882096003183 phosphorylation loop region [posttranslational modification] 882096003184 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 882096003185 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 882096003186 alpha subunit interface [polypeptide binding]; other site 882096003187 TPP binding site [chemical binding]; other site 882096003188 heterodimer interface [polypeptide binding]; other site 882096003189 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882096003190 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 882096003191 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 882096003192 E3 interaction surface; other site 882096003193 lipoyl attachment site [posttranslational modification]; other site 882096003194 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 882096003195 E3 interaction surface; other site 882096003196 lipoyl attachment site [posttranslational modification]; other site 882096003197 e3 binding domain; Region: E3_binding; pfam02817 882096003198 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 882096003199 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 882096003200 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882096003201 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096003202 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882096003203 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 882096003204 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 882096003205 NAD(P) binding site [chemical binding]; other site 882096003206 LDH/MDH dimer interface [polypeptide binding]; other site 882096003207 substrate binding site [chemical binding]; other site 882096003208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4476 882096003209 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 882096003210 Thioredoxin; Region: Thioredoxin_4; pfam13462 882096003211 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096003212 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 882096003213 active site 882096003214 phosphorylation site [posttranslational modification] 882096003215 intermolecular recognition site; other site 882096003216 dimerization interface [polypeptide binding]; other site 882096003217 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 882096003218 DNA binding site [nucleotide binding] 882096003219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882096003220 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 882096003221 dimerization interface [polypeptide binding]; other site 882096003222 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 882096003223 dimer interface [polypeptide binding]; other site 882096003224 phosphorylation site [posttranslational modification] 882096003225 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 882096003226 ATP binding site [chemical binding]; other site 882096003227 Mg2+ binding site [ion binding]; other site 882096003228 G-X-G motif; other site 882096003229 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882096003230 FtsX-like permease family; Region: FtsX; pfam02687 882096003231 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096003232 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096003233 Walker A/P-loop; other site 882096003234 ATP binding site [chemical binding]; other site 882096003235 Q-loop/lid; other site 882096003236 ABC transporter signature motif; other site 882096003237 Walker B; other site 882096003238 D-loop; other site 882096003239 H-loop/switch region; other site 882096003240 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 882096003241 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 882096003242 Cl binding site [ion binding]; other site 882096003243 oligomer interface [polypeptide binding]; other site 882096003244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 882096003245 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 882096003246 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 882096003247 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 882096003248 active site 882096003249 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 882096003250 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 882096003251 G1 box; other site 882096003252 putative GEF interaction site [polypeptide binding]; other site 882096003253 GTP/Mg2+ binding site [chemical binding]; other site 882096003254 Switch I region; other site 882096003255 G2 box; other site 882096003256 G3 box; other site 882096003257 Switch II region; other site 882096003258 G4 box; other site 882096003259 G5 box; other site 882096003260 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 882096003261 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 882096003262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4896 882096003263 hypothetical protein; Provisional; Region: PRK13666 882096003264 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 882096003265 pyruvate carboxylase; Reviewed; Region: PRK12999 882096003266 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882096003267 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 882096003268 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 882096003269 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 882096003270 active site 882096003271 catalytic residues [active] 882096003272 metal binding site [ion binding]; metal-binding site 882096003273 homodimer binding site [polypeptide binding]; other site 882096003274 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 882096003275 carboxyltransferase (CT) interaction site; other site 882096003276 biotinylation site [posttranslational modification]; other site 882096003277 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 882096003278 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 882096003279 putative binding site residues; other site 882096003280 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 882096003281 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 882096003282 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 882096003283 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 882096003284 Walker A/P-loop; other site 882096003285 ATP binding site [chemical binding]; other site 882096003286 Q-loop/lid; other site 882096003287 ABC transporter signature motif; other site 882096003288 Walker B; other site 882096003289 D-loop; other site 882096003290 H-loop/switch region; other site 882096003291 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 882096003292 SH3-like domain; Region: SH3_8; pfam13457 882096003293 SH3-like domain; Region: SH3_8; pfam13457 882096003294 SH3-like domain; Region: SH3_8; pfam13457 882096003295 SH3-like domain; Region: SH3_8; pfam13457 882096003296 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 882096003297 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 882096003298 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 882096003299 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 882096003300 active site 882096003301 tetramer interface; other site 882096003302 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 882096003303 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 882096003304 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882096003305 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 882096003306 active site 882096003307 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 882096003308 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 882096003309 substrate binding site; other site 882096003310 tetramer interface; other site 882096003311 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 882096003312 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 882096003313 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 882096003314 NAD binding site [chemical binding]; other site 882096003315 substrate binding site [chemical binding]; other site 882096003316 homodimer interface [polypeptide binding]; other site 882096003317 active site 882096003318 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 882096003319 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 882096003320 NADP binding site [chemical binding]; other site 882096003321 active site 882096003322 putative substrate binding site [chemical binding]; other site 882096003323 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 882096003324 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 882096003325 substrate binding site; other site 882096003326 dimer interface; other site 882096003327 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 882096003328 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882096003329 putative NAD(P) binding site [chemical binding]; other site 882096003330 putative catalytic Zn binding site [ion binding]; other site 882096003331 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 882096003332 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 882096003333 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 882096003334 active site 882096003335 putative glycosyl transferase; Provisional; Region: PRK10073 882096003336 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 882096003337 active site 882096003338 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 882096003339 active site 882096003340 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 882096003341 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 882096003342 active site 882096003343 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 882096003344 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 882096003345 homodimer interface [polypeptide binding]; other site 882096003346 NAD binding pocket [chemical binding]; other site 882096003347 ATP binding pocket [chemical binding]; other site 882096003348 Mg binding site [ion binding]; other site 882096003349 active-site loop [active] 882096003350 Uncharacterized conserved protein [Function unknown]; Region: COG1359 882096003351 Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]; Region: CelA; COG1440 882096003352 active site 882096003353 P-loop; other site 882096003354 phosphorylation site [posttranslational modification] 882096003355 GMP synthase; Reviewed; Region: guaA; PRK00074 882096003356 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 882096003357 AMP/PPi binding site [chemical binding]; other site 882096003358 candidate oxyanion hole; other site 882096003359 catalytic triad [active] 882096003360 potential glutamine specificity residues [chemical binding]; other site 882096003361 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 882096003362 ATP Binding subdomain [chemical binding]; other site 882096003363 Dimerization subdomain; other site 882096003364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096003365 Helix-turn-helix domain; Region: HTH_18; pfam12833 882096003366 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096003367 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 882096003368 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096003369 active site 882096003370 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 882096003371 LXG domain of WXG superfamily; Region: LXG; pfam04740 882096003372 LXG domain of WXG superfamily; Region: LXG; pfam04740 882096003373 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 882096003374 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 882096003375 MepB protein; Region: MepB; cl01985 882096003376 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 882096003377 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 882096003378 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 882096003379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096003380 Coenzyme A binding pocket [chemical binding]; other site 882096003381 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 882096003382 Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators; Region: HTH_BmrR-like; cd04768 882096003383 DNA binding residues [nucleotide binding] 882096003384 drug binding residues [chemical binding]; other site 882096003385 dimer interface [polypeptide binding]; other site 882096003386 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 882096003387 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096003388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096003389 Walker A/P-loop; other site 882096003390 ATP binding site [chemical binding]; other site 882096003391 Q-loop/lid; other site 882096003392 ABC transporter signature motif; other site 882096003393 Walker B; other site 882096003394 D-loop; other site 882096003395 H-loop/switch region; other site 882096003396 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096003397 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096003398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096003399 Walker A/P-loop; other site 882096003400 ATP binding site [chemical binding]; other site 882096003401 Q-loop/lid; other site 882096003402 ABC transporter signature motif; other site 882096003403 Walker B; other site 882096003404 D-loop; other site 882096003405 H-loop/switch region; other site 882096003406 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 882096003407 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 882096003408 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 882096003409 DNA binding residues [nucleotide binding] 882096003410 putative dimer interface [polypeptide binding]; other site 882096003411 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096003412 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 882096003413 LRR adjacent; Region: LRR_adjacent; pfam08191 882096003414 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096003415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 882096003416 Clp protease; Region: CLP_protease; pfam00574 882096003417 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 882096003418 oligomer interface [polypeptide binding]; other site 882096003419 active site residues [active] 882096003420 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 882096003421 dimer interface [polypeptide binding]; other site 882096003422 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096003423 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 882096003424 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 882096003425 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 882096003426 SLBB domain; Region: SLBB; pfam10531 882096003427 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882096003428 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 882096003429 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 882096003430 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 882096003431 putative hexamer interface [polypeptide binding]; other site 882096003432 putative hexagonal pore; other site 882096003433 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 882096003434 putative hexamer interface [polypeptide binding]; other site 882096003435 putative hexagonal pore; other site 882096003436 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 882096003437 putative hexamer interface [polypeptide binding]; other site 882096003438 putative hexagonal pore; other site 882096003439 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 882096003440 G1 box; other site 882096003441 GTP/Mg2+ binding site [chemical binding]; other site 882096003442 G2 box; other site 882096003443 Switch I region; other site 882096003444 G3 box; other site 882096003445 Switch II region; other site 882096003446 G4 box; other site 882096003447 G5 box; other site 882096003448 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 882096003449 homotrimer interface [polypeptide binding]; other site 882096003450 Walker A motif; other site 882096003451 GTP binding site [chemical binding]; other site 882096003452 Walker B motif; other site 882096003453 Cobalamin-5-phosphate synthase [Coenzyme metabolism]; Region: CobS; COG0368 882096003454 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 882096003455 catalytic core [active] 882096003456 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 882096003457 Sensory domain found in PocR; Region: PocR; pfam10114 882096003458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096003459 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882096003460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096003461 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 882096003462 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 882096003463 Hexamer interface [polypeptide binding]; other site 882096003464 Hexagonal pore residue; other site 882096003465 propanediol utilization protein PduB; Provisional; Region: PRK15415 882096003466 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 882096003467 putative hexamer interface [polypeptide binding]; other site 882096003468 putative hexagonal pore; other site 882096003469 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 882096003470 putative hexamer interface [polypeptide binding]; other site 882096003471 putative hexagonal pore; other site 882096003472 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 882096003473 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 882096003474 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 882096003475 alpha-beta subunit interface [polypeptide binding]; other site 882096003476 alpha-gamma subunit interface [polypeptide binding]; other site 882096003477 active site 882096003478 substrate and K+ binding site; other site 882096003479 K+ binding site [ion binding]; other site 882096003480 cobalamin binding site [chemical binding]; other site 882096003481 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 882096003482 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 882096003483 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 882096003484 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 882096003485 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 882096003486 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 882096003487 putative hexamer interface [polypeptide binding]; other site 882096003488 putative hexagonal pore; other site 882096003489 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 882096003490 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 882096003491 Hexamer interface [polypeptide binding]; other site 882096003492 Hexagonal pore residue; other site 882096003493 Propanediol utilization protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduL; COG4869 882096003494 Propanediol utilisation protein PduL; Region: PduL; pfam06130 882096003495 Propanediol utilisation protein PduL; Region: PduL; pfam06130 882096003496 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 882096003497 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096003498 nucleotide binding site [chemical binding]; other site 882096003499 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 882096003500 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 882096003501 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 882096003502 Hexamer/Pentamer interface [polypeptide binding]; other site 882096003503 central pore; other site 882096003504 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 882096003505 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 882096003506 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 882096003507 putative catalytic cysteine [active] 882096003508 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 882096003509 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 882096003510 putative active site [active] 882096003511 metal binding site [ion binding]; metal-binding site 882096003512 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 882096003513 amphipathic channel; other site 882096003514 Asn-Pro-Ala signature motifs; other site 882096003515 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 882096003516 propionate/acetate kinase; Provisional; Region: PRK12379 882096003517 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 882096003518 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 882096003519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096003520 homodimer interface [polypeptide binding]; other site 882096003521 catalytic residue [active] 882096003522 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 882096003523 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 882096003524 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 882096003525 putative active site [active] 882096003526 metal binding site [ion binding]; metal-binding site 882096003527 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 882096003528 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 882096003529 active site 882096003530 phosphorylation site [posttranslational modification] 882096003531 intermolecular recognition site; other site 882096003532 dimerization interface [polypeptide binding]; other site 882096003533 ANTAR domain; Region: ANTAR; pfam03861 882096003534 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 882096003535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 882096003536 Histidine kinase; Region: HisKA_2; pfam07568 882096003537 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 882096003538 ATP binding site [chemical binding]; other site 882096003539 Mg2+ binding site [ion binding]; other site 882096003540 G-X-G motif; other site 882096003541 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 882096003542 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 882096003543 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 882096003544 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 882096003545 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 882096003546 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 882096003547 putative hexamer interface [polypeptide binding]; other site 882096003548 putative hexagonal pore; other site 882096003549 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 882096003550 putative hexamer interface [polypeptide binding]; other site 882096003551 putative hexagonal pore; other site 882096003552 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 882096003553 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 882096003554 Hexamer interface [polypeptide binding]; other site 882096003555 Hexagonal pore residue; other site 882096003556 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 882096003557 putative catalytic cysteine [active] 882096003558 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 882096003559 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 882096003560 Hexamer interface [polypeptide binding]; other site 882096003561 Putative hexagonal pore residue; other site 882096003562 Ethanolamine utilization cobalamin adenosyltransferase [Amino acid transport and metabolism]; Region: EutT; COG4812 882096003563 Propanediol utilization protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduL; COG4869 882096003564 Propanediol utilisation protein PduL; Region: PduL; pfam06130 882096003565 Propanediol utilisation protein PduL; Region: PduL; pfam06130 882096003566 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 882096003567 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 882096003568 Hexamer/Pentamer interface [polypeptide binding]; other site 882096003569 central pore; other site 882096003570 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 882096003571 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 882096003572 putative hexamer interface [polypeptide binding]; other site 882096003573 putative hexagonal pore; other site 882096003574 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 882096003575 putative hexamer interface [polypeptide binding]; other site 882096003576 putative hexagonal pore; other site 882096003577 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 882096003578 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 882096003579 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 882096003580 hypothetical protein; Region: PHA01818 882096003581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096003582 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882096003583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096003584 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 882096003585 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 882096003586 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 882096003587 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 882096003588 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 882096003589 catalytic triad [active] 882096003590 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 882096003591 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 882096003592 Precorrin-8X methylmutase; Region: CbiC; pfam02570 882096003593 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 882096003594 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 882096003595 active site 882096003596 putative homodimer interface [polypeptide binding]; other site 882096003597 SAM binding site [chemical binding]; other site 882096003598 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 882096003599 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 882096003600 S-adenosylmethionine binding site [chemical binding]; other site 882096003601 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 882096003602 active site 882096003603 SAM binding site [chemical binding]; other site 882096003604 homodimer interface [polypeptide binding]; other site 882096003605 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 882096003606 active site 882096003607 SAM binding site [chemical binding]; other site 882096003608 homodimer interface [polypeptide binding]; other site 882096003609 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 882096003610 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 882096003611 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 882096003612 active site 882096003613 SAM binding site [chemical binding]; other site 882096003614 homodimer interface [polypeptide binding]; other site 882096003615 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 882096003616 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 882096003617 active site 882096003618 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 882096003619 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 882096003620 active site 882096003621 C-terminal domain interface [polypeptide binding]; other site 882096003622 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 882096003623 active site 882096003624 N-terminal domain interface [polypeptide binding]; other site 882096003625 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 882096003626 active site 882096003627 SAM binding site [chemical binding]; other site 882096003628 homodimer interface [polypeptide binding]; other site 882096003629 cobalt transport protein CbiM; Validated; Region: PRK08319 882096003630 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 882096003631 ABC-type cobalt transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiN; COG1930 882096003632 cobalt transport protein CbiQ; Provisional; Region: PRK15485 882096003633 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 882096003634 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 882096003635 Walker A/P-loop; other site 882096003636 ATP binding site [chemical binding]; other site 882096003637 Q-loop/lid; other site 882096003638 ABC transporter signature motif; other site 882096003639 Walker B; other site 882096003640 D-loop; other site 882096003641 H-loop/switch region; other site 882096003642 cobyric acid synthase; Provisional; Region: PRK00784 882096003643 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 882096003644 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 882096003645 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 882096003646 catalytic triad [active] 882096003647 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 882096003648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 882096003649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 882096003650 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 882096003651 AAA domain; Region: AAA_17; pfam13207 882096003652 Predicted transcriptional regulators [Transcription]; Region: COG1695 882096003653 Transcriptional regulator PadR-like family; Region: PadR; cl17335 882096003654 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 882096003655 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 882096003656 SH3-like domain; Region: SH3_8; pfam13457 882096003657 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 882096003658 SH3-like domain; Region: SH3_8; pfam13457 882096003659 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 882096003660 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 882096003661 oligomer interface [polypeptide binding]; other site 882096003662 active site 882096003663 metal binding site [ion binding]; metal-binding site 882096003664 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 882096003665 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 882096003666 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 882096003667 Predicted transcriptional regulators [Transcription]; Region: COG1733 882096003668 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 882096003669 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 882096003670 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 882096003671 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 882096003672 dimer interface [polypeptide binding]; other site 882096003673 motif 1; other site 882096003674 active site 882096003675 motif 2; other site 882096003676 motif 3; other site 882096003677 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 882096003678 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 882096003679 putative tRNA-binding site [nucleotide binding]; other site 882096003680 B3/4 domain; Region: B3_4; pfam03483 882096003681 tRNA synthetase B5 domain; Region: B5; smart00874 882096003682 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 882096003683 dimer interface [polypeptide binding]; other site 882096003684 motif 1; other site 882096003685 motif 3; other site 882096003686 motif 2; other site 882096003687 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 882096003688 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096003689 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096003690 Walker A/P-loop; other site 882096003691 ATP binding site [chemical binding]; other site 882096003692 Q-loop/lid; other site 882096003693 ABC transporter signature motif; other site 882096003694 Walker B; other site 882096003695 D-loop; other site 882096003696 H-loop/switch region; other site 882096003697 FtsX-like permease family; Region: FtsX; pfam02687 882096003698 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 882096003699 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882096003700 FtsX-like permease family; Region: FtsX; pfam02687 882096003701 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882096003702 MarR family; Region: MarR_2; pfam12802 882096003703 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 882096003704 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 882096003705 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 882096003706 ligand binding site [chemical binding]; other site 882096003707 active site 882096003708 UGI interface [polypeptide binding]; other site 882096003709 catalytic site [active] 882096003710 ribonuclease HIII; Provisional; Region: PRK00996 882096003711 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 882096003712 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 882096003713 RNA/DNA hybrid binding site [nucleotide binding]; other site 882096003714 active site 882096003715 Cell division protein ZapA; Region: ZapA; cl01146 882096003716 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 882096003717 Colicin V production protein; Region: Colicin_V; pfam02674 882096003718 hypothetical protein; Provisional; Region: PRK08609 882096003719 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 882096003720 active site 882096003721 primer binding site [nucleotide binding]; other site 882096003722 NTP binding site [chemical binding]; other site 882096003723 metal binding triad [ion binding]; metal-binding site 882096003724 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 882096003725 active site 882096003726 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 882096003727 MutS domain III; Region: MutS_III; pfam05192 882096003728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096003729 Walker A/P-loop; other site 882096003730 ATP binding site [chemical binding]; other site 882096003731 Q-loop/lid; other site 882096003732 ABC transporter signature motif; other site 882096003733 Walker B; other site 882096003734 D-loop; other site 882096003735 H-loop/switch region; other site 882096003736 Smr domain; Region: Smr; pfam01713 882096003737 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 882096003738 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 882096003739 catalytic residues [active] 882096003740 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 882096003741 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 882096003742 GIY-YIG motif/motif A; other site 882096003743 active site 882096003744 catalytic site [active] 882096003745 putative DNA binding site [nucleotide binding]; other site 882096003746 metal binding site [ion binding]; metal-binding site 882096003747 UvrB/uvrC motif; Region: UVR; pfam02151 882096003748 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 882096003749 aspartate kinase; Reviewed; Region: PRK06635 882096003750 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 882096003751 putative nucleotide binding site [chemical binding]; other site 882096003752 putative catalytic residues [active] 882096003753 putative Mg ion binding site [ion binding]; other site 882096003754 putative aspartate binding site [chemical binding]; other site 882096003755 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 882096003756 putative allosteric regulatory site; other site 882096003757 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 882096003758 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 882096003759 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 882096003760 ribonuclease PH; Reviewed; Region: rph; PRK00173 882096003761 Ribonuclease PH; Region: RNase_PH_bact; cd11362 882096003762 hexamer interface [polypeptide binding]; other site 882096003763 active site 882096003764 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 882096003765 active site 882096003766 dimerization interface [polypeptide binding]; other site 882096003767 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 882096003768 active site 882096003769 metal binding site [ion binding]; metal-binding site 882096003770 homotetramer interface [polypeptide binding]; other site 882096003771 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 882096003772 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 882096003773 Int/Topo IB signature motif; other site 882096003774 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882096003775 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 882096003776 non-specific DNA binding site [nucleotide binding]; other site 882096003777 salt bridge; other site 882096003778 sequence-specific DNA binding site [nucleotide binding]; other site 882096003779 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 882096003780 salt bridge; other site 882096003781 non-specific DNA binding site [nucleotide binding]; other site 882096003782 sequence-specific DNA binding site [nucleotide binding]; other site 882096003783 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 882096003784 phage uncharacterized protein TIGR01671; Region: phage_TIGR01671 882096003785 Domain of Unknown Function with PDB structure (DUF3850); Region: DUF3850; pfam12961 882096003786 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 882096003787 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 882096003788 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 882096003789 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 882096003790 AAA domain; Region: AAA_24; pfam13479 882096003791 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 882096003792 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 882096003793 ATP binding site [chemical binding]; other site 882096003794 putative Mg++ binding site [ion binding]; other site 882096003795 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 882096003796 nucleotide binding region [chemical binding]; other site 882096003797 ATP-binding site [chemical binding]; other site 882096003798 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 882096003799 Protein of unknown function (DUF669); Region: DUF669; pfam05037 882096003800 Uncharacterized conserved protein [Function unknown]; Region: COG4983 882096003801 D5 N terminal like; Region: D5_N; smart00885 882096003802 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 882096003803 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 882096003804 VRR-NUC domain; Region: VRR_NUC; pfam08774 882096003805 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 882096003806 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 882096003807 Protein of unknown function (DUF722); Region: DUF722; pfam05263 882096003808 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 882096003809 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 882096003810 active site 882096003811 Phage terminase, small subunit; Region: Terminase_4; cl01525 882096003812 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 882096003813 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 882096003814 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 882096003815 Phage portal protein; Region: Phage_portal; pfam04860 882096003816 Phage-related protein [Function unknown]; Region: COG4695; cl01923 882096003817 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 882096003818 oligomer interface [polypeptide binding]; other site 882096003819 active site residues [active] 882096003820 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 882096003821 Phage capsid family; Region: Phage_capsid; pfam05065 882096003822 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 882096003823 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 882096003824 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 882096003825 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882096003826 catalytic residue [active] 882096003827 Phage tail protein; Region: Sipho_tail; cl17486 882096003828 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 882096003829 Bacteriophage holin; Region: Phage_holin_1; cl02344 882096003830 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 882096003831 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 882096003832 amidase catalytic site [active] 882096003833 Zn binding residues [ion binding]; other site 882096003834 substrate binding site [chemical binding]; other site 882096003835 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 882096003836 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 882096003837 non-specific DNA binding site [nucleotide binding]; other site 882096003838 salt bridge; other site 882096003839 sequence-specific DNA binding site [nucleotide binding]; other site 882096003840 Uncharacterized conserved protein [Function unknown]; Region: COG5361 882096003841 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 882096003842 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 882096003843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 882096003844 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 882096003845 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 882096003846 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 882096003847 dimer interface [polypeptide binding]; other site 882096003848 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 882096003849 catalytic core [active] 882096003850 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 882096003851 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 882096003852 ATP binding site [chemical binding]; other site 882096003853 Mg++ binding site [ion binding]; other site 882096003854 motif III; other site 882096003855 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 882096003856 nucleotide binding region [chemical binding]; other site 882096003857 ATP-binding site [chemical binding]; other site 882096003858 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 882096003859 RNA binding site [nucleotide binding]; other site 882096003860 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 882096003861 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 882096003862 putative active site [active] 882096003863 nucleotide binding site [chemical binding]; other site 882096003864 nudix motif; other site 882096003865 putative metal binding site [ion binding]; other site 882096003866 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 882096003867 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096003868 putative substrate translocation pore; other site 882096003869 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096003870 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096003871 ligand binding site [chemical binding]; other site 882096003872 flexible hinge region; other site 882096003873 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882096003874 Uncharacterized conserved protein [Function unknown]; Region: COG1284 882096003875 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882096003876 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882096003877 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 882096003878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096003879 DNA-binding site [nucleotide binding]; DNA binding site 882096003880 UTRA domain; Region: UTRA; pfam07702 882096003881 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 882096003882 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 882096003883 Ca binding site [ion binding]; other site 882096003884 active site 882096003885 catalytic site [active] 882096003886 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 882096003887 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 882096003888 active site turn [active] 882096003889 phosphorylation site [posttranslational modification] 882096003890 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 882096003891 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 882096003892 nudix motif; other site 882096003893 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 882096003894 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 882096003895 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 882096003896 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 882096003897 putative catalytic cysteine [active] 882096003898 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 882096003899 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 882096003900 nucleotide binding site [chemical binding]; other site 882096003901 homotetrameric interface [polypeptide binding]; other site 882096003902 putative phosphate binding site [ion binding]; other site 882096003903 putative allosteric binding site; other site 882096003904 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 882096003905 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 882096003906 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882096003907 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 882096003908 non-specific DNA binding site [nucleotide binding]; other site 882096003909 salt bridge; other site 882096003910 sequence-specific DNA binding site [nucleotide binding]; other site 882096003911 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 882096003912 non-specific DNA binding site [nucleotide binding]; other site 882096003913 salt bridge; other site 882096003914 sequence-specific DNA binding site [nucleotide binding]; other site 882096003915 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 882096003916 active site 882096003917 trigger factor; Provisional; Region: tig; PRK01490 882096003918 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 882096003919 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 882096003920 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 882096003921 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 882096003922 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 882096003923 Walker A motif; other site 882096003924 ATP binding site [chemical binding]; other site 882096003925 Walker B motif; other site 882096003926 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 882096003927 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 882096003928 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 882096003929 Catalytic site [active] 882096003930 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 882096003931 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 882096003932 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 882096003933 Catalytic site [active] 882096003934 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 882096003935 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 882096003936 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 882096003937 Catalytic site [active] 882096003938 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 882096003939 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 882096003940 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 882096003941 GTP/Mg2+ binding site [chemical binding]; other site 882096003942 G4 box; other site 882096003943 G5 box; other site 882096003944 G1 box; other site 882096003945 Switch I region; other site 882096003946 G2 box; other site 882096003947 G3 box; other site 882096003948 Switch II region; other site 882096003949 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 882096003950 RNA/DNA hybrid binding site [nucleotide binding]; other site 882096003951 active site 882096003952 DNA protecting protein DprA; Region: dprA; TIGR00732 882096003953 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 882096003954 DNA topoisomerase I; Validated; Region: PRK05582 882096003955 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 882096003956 active site 882096003957 interdomain interaction site; other site 882096003958 putative metal-binding site [ion binding]; other site 882096003959 nucleotide binding site [chemical binding]; other site 882096003960 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 882096003961 domain I; other site 882096003962 DNA binding groove [nucleotide binding] 882096003963 phosphate binding site [ion binding]; other site 882096003964 domain II; other site 882096003965 domain III; other site 882096003966 nucleotide binding site [chemical binding]; other site 882096003967 catalytic site [active] 882096003968 domain IV; other site 882096003969 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 882096003970 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 882096003971 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 882096003972 Glucose inhibited division protein A; Region: GIDA; pfam01134 882096003973 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 882096003974 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 882096003975 active site 882096003976 DNA binding site [nucleotide binding] 882096003977 Int/Topo IB signature motif; other site 882096003978 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 882096003979 active site 882096003980 HslU subunit interaction site [polypeptide binding]; other site 882096003981 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 882096003982 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 882096003983 Walker A motif; other site 882096003984 ATP binding site [chemical binding]; other site 882096003985 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 882096003986 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 882096003987 transcriptional repressor CodY; Validated; Region: PRK04158 882096003988 CodY GAF-like domain; Region: CodY; pfam06018 882096003989 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 882096003990 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 882096003991 active site 882096003992 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 882096003993 active site 882096003994 catalytic residues [active] 882096003995 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 882096003996 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 882096003997 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 882096003998 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 882096003999 Mg2+ binding site [ion binding]; other site 882096004000 G-X-G motif; other site 882096004001 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 882096004002 anchoring element; other site 882096004003 dimer interface [polypeptide binding]; other site 882096004004 ATP binding site [chemical binding]; other site 882096004005 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 882096004006 active site 882096004007 putative metal-binding site [ion binding]; other site 882096004008 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 882096004009 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 882096004010 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 882096004011 CAP-like domain; other site 882096004012 active site 882096004013 primary dimer interface [polypeptide binding]; other site 882096004014 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882096004015 S-ribosylhomocysteinase; Provisional; Region: PRK02260 882096004016 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096004017 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096004018 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 882096004019 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 882096004020 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 882096004021 catalytic triad [active] 882096004022 catalytic triad [active] 882096004023 oxyanion hole [active] 882096004024 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 882096004025 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 882096004026 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 882096004027 active site 882096004028 catalytic site [active] 882096004029 metal binding site [ion binding]; metal-binding site 882096004030 dimer interface [polypeptide binding]; other site 882096004031 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 882096004032 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 882096004033 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 882096004034 bacterial Hfq-like; Region: Hfq; cd01716 882096004035 hexamer interface [polypeptide binding]; other site 882096004036 Sm1 motif; other site 882096004037 RNA binding site [nucleotide binding]; other site 882096004038 Sm2 motif; other site 882096004039 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 882096004040 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 882096004041 HflX GTPase family; Region: HflX; cd01878 882096004042 G1 box; other site 882096004043 GTP/Mg2+ binding site [chemical binding]; other site 882096004044 Switch I region; other site 882096004045 G2 box; other site 882096004046 G3 box; other site 882096004047 Switch II region; other site 882096004048 G4 box; other site 882096004049 G5 box; other site 882096004050 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 882096004051 Aluminium resistance protein; Region: Alum_res; pfam06838 882096004052 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 882096004053 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 882096004054 DNA binding residues [nucleotide binding] 882096004055 putative dimer interface [polypeptide binding]; other site 882096004056 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 882096004057 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 882096004058 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 882096004059 arsenical pump membrane protein; Provisional; Region: PRK15445 882096004060 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 882096004061 transmembrane helices; other site 882096004062 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 882096004063 LexA repressor; Validated; Region: PRK00215 882096004064 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 882096004065 putative DNA binding site [nucleotide binding]; other site 882096004066 putative Zn2+ binding site [ion binding]; other site 882096004067 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 882096004068 Catalytic site [active] 882096004069 cell division suppressor protein YneA; Provisional; Region: PRK14125 882096004070 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 882096004071 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 882096004072 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 882096004073 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 882096004074 TPP-binding site [chemical binding]; other site 882096004075 dimer interface [polypeptide binding]; other site 882096004076 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 882096004077 PYR/PP interface [polypeptide binding]; other site 882096004078 dimer interface [polypeptide binding]; other site 882096004079 TPP binding site [chemical binding]; other site 882096004080 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882096004081 hypothetical protein; Provisional; Region: PRK01844 882096004082 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 882096004083 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 882096004084 Methyltransferase domain; Region: Methyltransf_31; pfam13847 882096004085 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 882096004086 S-adenosylmethionine binding site [chemical binding]; other site 882096004087 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 882096004088 ParB-like nuclease domain; Region: ParBc; pfam02195 882096004089 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 882096004090 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 882096004091 Active Sites [active] 882096004092 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 882096004093 DEAD-like helicases superfamily; Region: DEXDc; smart00487 882096004094 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 882096004095 putative nucleotide binding site [chemical binding]; other site 882096004096 uridine monophosphate binding site [chemical binding]; other site 882096004097 homohexameric interface [polypeptide binding]; other site 882096004098 ribosome recycling factor; Reviewed; Region: frr; PRK00083 882096004099 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 882096004100 hinge region; other site 882096004101 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 882096004102 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 882096004103 catalytic residue [active] 882096004104 putative FPP diphosphate binding site; other site 882096004105 putative FPP binding hydrophobic cleft; other site 882096004106 dimer interface [polypeptide binding]; other site 882096004107 putative IPP diphosphate binding site; other site 882096004108 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 882096004109 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 882096004110 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 882096004111 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 882096004112 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 882096004113 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 882096004114 RIP metalloprotease RseP; Region: TIGR00054 882096004115 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 882096004116 active site 882096004117 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 882096004118 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 882096004119 protein binding site [polypeptide binding]; other site 882096004120 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 882096004121 putative substrate binding region [chemical binding]; other site 882096004122 prolyl-tRNA synthetase; Provisional; Region: PRK09194 882096004123 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 882096004124 dimer interface [polypeptide binding]; other site 882096004125 motif 1; other site 882096004126 active site 882096004127 motif 2; other site 882096004128 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 882096004129 putative deacylase active site [active] 882096004130 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 882096004131 active site 882096004132 motif 3; other site 882096004133 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 882096004134 anticodon binding site; other site 882096004135 DNA polymerase III PolC; Validated; Region: polC; PRK00448 882096004136 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 882096004137 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 882096004138 generic binding surface II; other site 882096004139 generic binding surface I; other site 882096004140 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 882096004141 active site 882096004142 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 882096004143 active site 882096004144 catalytic site [active] 882096004145 substrate binding site [chemical binding]; other site 882096004146 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 882096004147 ribosome maturation protein RimP; Reviewed; Region: PRK00092 882096004148 Sm and related proteins; Region: Sm_like; cl00259 882096004149 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 882096004150 putative oligomer interface [polypeptide binding]; other site 882096004151 putative RNA binding site [nucleotide binding]; other site 882096004152 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 882096004153 NusA N-terminal domain; Region: NusA_N; pfam08529 882096004154 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 882096004155 RNA binding site [nucleotide binding]; other site 882096004156 homodimer interface [polypeptide binding]; other site 882096004157 NusA-like KH domain; Region: KH_5; pfam13184 882096004158 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 882096004159 G-X-X-G motif; other site 882096004160 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 882096004161 putative RNA binding cleft [nucleotide binding]; other site 882096004162 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 882096004163 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 882096004164 translation initiation factor IF-2; Region: IF-2; TIGR00487 882096004165 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 882096004166 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 882096004167 G1 box; other site 882096004168 putative GEF interaction site [polypeptide binding]; other site 882096004169 GTP/Mg2+ binding site [chemical binding]; other site 882096004170 Switch I region; other site 882096004171 G2 box; other site 882096004172 G3 box; other site 882096004173 Switch II region; other site 882096004174 G4 box; other site 882096004175 G5 box; other site 882096004176 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 882096004177 Translation-initiation factor 2; Region: IF-2; pfam11987 882096004178 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 882096004179 Protein of unknown function (DUF503); Region: DUF503; cl00669 882096004180 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 882096004181 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 882096004182 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 882096004183 RNA binding site [nucleotide binding]; other site 882096004184 active site 882096004185 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 882096004186 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 882096004187 active site 882096004188 Riboflavin kinase; Region: Flavokinase; smart00904 882096004189 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 882096004190 16S/18S rRNA binding site [nucleotide binding]; other site 882096004191 S13e-L30e interaction site [polypeptide binding]; other site 882096004192 25S rRNA binding site [nucleotide binding]; other site 882096004193 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 882096004194 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 882096004195 RNase E interface [polypeptide binding]; other site 882096004196 trimer interface [polypeptide binding]; other site 882096004197 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 882096004198 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 882096004199 RNase E interface [polypeptide binding]; other site 882096004200 trimer interface [polypeptide binding]; other site 882096004201 active site 882096004202 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 882096004203 putative nucleic acid binding region [nucleotide binding]; other site 882096004204 G-X-X-G motif; other site 882096004205 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 882096004206 RNA binding site [nucleotide binding]; other site 882096004207 domain interface; other site 882096004208 GTPase RsgA; Reviewed; Region: PRK01889 882096004209 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 882096004210 RNA binding site [nucleotide binding]; other site 882096004211 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 882096004212 GTPase/Zn-binding domain interface [polypeptide binding]; other site 882096004213 GTP/Mg2+ binding site [chemical binding]; other site 882096004214 G4 box; other site 882096004215 G5 box; other site 882096004216 G1 box; other site 882096004217 Switch I region; other site 882096004218 G2 box; other site 882096004219 G3 box; other site 882096004220 Switch II region; other site 882096004221 YceG-like family; Region: YceG; pfam02618 882096004222 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 882096004223 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 882096004224 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 882096004225 Rhomboid family; Region: Rhomboid; pfam01694 882096004226 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 882096004227 TPR motif; other site 882096004228 TPR repeat; Region: TPR_11; pfam13414 882096004229 binding surface 882096004230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4483 882096004231 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 882096004232 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096004233 nucleotide binding site [chemical binding]; other site 882096004234 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 882096004235 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 882096004236 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 882096004237 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 882096004238 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 882096004239 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 882096004240 Type II/IV secretion system protein; Region: T2SE; pfam00437 882096004241 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 882096004242 Walker A motif; other site 882096004243 ATP binding site [chemical binding]; other site 882096004244 Walker B motif; other site 882096004245 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 882096004246 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 882096004247 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 882096004248 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 882096004249 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 882096004250 tetramer interface [polypeptide binding]; other site 882096004251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096004252 catalytic residue [active] 882096004253 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 882096004254 tetramer interface [polypeptide binding]; other site 882096004255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096004256 catalytic residue [active] 882096004257 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 882096004258 active site residue [active] 882096004259 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 882096004260 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 882096004261 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 882096004262 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 882096004263 active site 882096004264 elongation factor P; Validated; Region: PRK00529 882096004265 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 882096004266 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 882096004267 RNA binding site [nucleotide binding]; other site 882096004268 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 882096004269 RNA binding site [nucleotide binding]; other site 882096004270 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 882096004271 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 882096004272 carboxyltransferase (CT) interaction site; other site 882096004273 biotinylation site [posttranslational modification]; other site 882096004274 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 882096004275 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882096004276 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882096004277 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 882096004278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 882096004279 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 882096004280 putative RNA binding site [nucleotide binding]; other site 882096004281 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14170 882096004282 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 882096004283 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 882096004284 homodimer interface [polypeptide binding]; other site 882096004285 NADP binding site [chemical binding]; other site 882096004286 substrate binding site [chemical binding]; other site 882096004287 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 882096004288 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 882096004289 generic binding surface II; other site 882096004290 generic binding surface I; other site 882096004291 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14064 882096004292 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 882096004293 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 882096004294 substrate binding pocket [chemical binding]; other site 882096004295 chain length determination region; other site 882096004296 substrate-Mg2+ binding site; other site 882096004297 catalytic residues [active] 882096004298 aspartate-rich region 1; other site 882096004299 active site lid residues [active] 882096004300 aspartate-rich region 2; other site 882096004301 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 882096004302 DNA-binding site [nucleotide binding]; DNA binding site 882096004303 RNA-binding motif; other site 882096004304 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 882096004305 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 882096004306 TPP-binding site; other site 882096004307 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 882096004308 PYR/PP interface [polypeptide binding]; other site 882096004309 dimer interface [polypeptide binding]; other site 882096004310 TPP binding site [chemical binding]; other site 882096004311 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882096004312 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 882096004313 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 882096004314 RNA binding surface [nucleotide binding]; other site 882096004315 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 882096004316 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 882096004317 arginine repressor; Provisional; Region: PRK04280 882096004318 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 882096004319 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 882096004320 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 882096004321 Walker A/P-loop; other site 882096004322 ATP binding site [chemical binding]; other site 882096004323 Q-loop/lid; other site 882096004324 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 882096004325 ABC transporter signature motif; other site 882096004326 Walker B; other site 882096004327 D-loop; other site 882096004328 H-loop/switch region; other site 882096004329 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 882096004330 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096004331 nucleotide binding site [chemical binding]; other site 882096004332 Acetokinase family; Region: Acetate_kinase; cl17229 882096004333 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 882096004334 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096004335 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882096004336 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 882096004337 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 882096004338 tetramer interface [polypeptide binding]; other site 882096004339 TPP-binding site [chemical binding]; other site 882096004340 heterodimer interface [polypeptide binding]; other site 882096004341 phosphorylation loop region [posttranslational modification] 882096004342 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 882096004343 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 882096004344 alpha subunit interface [polypeptide binding]; other site 882096004345 TPP binding site [chemical binding]; other site 882096004346 heterodimer interface [polypeptide binding]; other site 882096004347 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882096004348 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 882096004349 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 882096004350 E3 interaction surface; other site 882096004351 lipoyl attachment site [posttranslational modification]; other site 882096004352 e3 binding domain; Region: E3_binding; pfam02817 882096004353 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 882096004354 peptidase T-like protein; Region: PepT-like; TIGR01883 882096004355 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 882096004356 metal binding site [ion binding]; metal-binding site 882096004357 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 882096004358 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 882096004359 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 882096004360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096004361 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 882096004362 active site 882096004363 phosphorylation site [posttranslational modification] 882096004364 intermolecular recognition site; other site 882096004365 dimerization interface [polypeptide binding]; other site 882096004366 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 882096004367 DNA binding site [nucleotide binding] 882096004368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882096004369 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 882096004370 dimerization interface [polypeptide binding]; other site 882096004371 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 882096004372 dimer interface [polypeptide binding]; other site 882096004373 phosphorylation site [posttranslational modification] 882096004374 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 882096004375 ATP binding site [chemical binding]; other site 882096004376 Mg2+ binding site [ion binding]; other site 882096004377 G-X-G motif; other site 882096004378 OxaA-like protein precursor; Validated; Region: PRK01622 882096004379 acylphosphatase; Provisional; Region: PRK14443 882096004380 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 882096004381 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 882096004382 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 882096004383 homotetramer interface [polypeptide binding]; other site 882096004384 FMN binding site [chemical binding]; other site 882096004385 homodimer contacts [polypeptide binding]; other site 882096004386 putative active site [active] 882096004387 putative substrate binding site [chemical binding]; other site 882096004388 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 882096004389 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 882096004390 active site residue [active] 882096004391 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 882096004392 Uncharacterized conserved protein [Function unknown]; Region: COG1284 882096004393 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882096004394 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882096004395 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 882096004396 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 882096004397 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 882096004398 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 882096004399 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06928 882096004400 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 882096004401 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 882096004402 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 882096004403 ligand binding site [chemical binding]; other site 882096004404 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 882096004405 Walker A/P-loop; other site 882096004406 ATP binding site [chemical binding]; other site 882096004407 ABC transporter; Region: ABC_tran; pfam00005 882096004408 Q-loop/lid; other site 882096004409 ABC transporter signature motif; other site 882096004410 Walker B; other site 882096004411 D-loop; other site 882096004412 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 882096004413 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 882096004414 TM-ABC transporter signature motif; other site 882096004415 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 882096004416 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 882096004417 TM-ABC transporter signature motif; other site 882096004418 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 882096004419 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882096004420 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 882096004421 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 882096004422 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882096004423 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 882096004424 classical (c) SDRs; Region: SDR_c; cd05233 882096004425 NAD(P) binding site [chemical binding]; other site 882096004426 active site 882096004427 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 882096004428 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 882096004429 non-specific DNA binding site [nucleotide binding]; other site 882096004430 salt bridge; other site 882096004431 sequence-specific DNA binding site [nucleotide binding]; other site 882096004432 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 882096004433 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 882096004434 competence damage-inducible protein A; Provisional; Region: PRK00549 882096004435 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 882096004436 putative MPT binding site; other site 882096004437 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 882096004438 recombinase A; Provisional; Region: recA; PRK09354 882096004439 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 882096004440 hexamer interface [polypeptide binding]; other site 882096004441 Walker A motif; other site 882096004442 ATP binding site [chemical binding]; other site 882096004443 Walker B motif; other site 882096004444 phosphodiesterase; Provisional; Region: PRK12704 882096004445 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096004446 Zn2+ binding site [ion binding]; other site 882096004447 Mg2+ binding site [ion binding]; other site 882096004448 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 882096004449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096004450 Coenzyme A binding pocket [chemical binding]; other site 882096004451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 882096004452 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 882096004453 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 882096004454 putative active site [active] 882096004455 metal binding site [ion binding]; metal-binding site 882096004456 homodimer binding site [polypeptide binding]; other site 882096004457 Predicted membrane protein [Function unknown]; Region: COG4550 882096004458 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 882096004459 MutS domain I; Region: MutS_I; pfam01624 882096004460 MutS domain II; Region: MutS_II; pfam05188 882096004461 MutS domain III; Region: MutS_III; pfam05192 882096004462 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 882096004463 Walker A/P-loop; other site 882096004464 ATP binding site [chemical binding]; other site 882096004465 Q-loop/lid; other site 882096004466 ABC transporter signature motif; other site 882096004467 Walker B; other site 882096004468 D-loop; other site 882096004469 H-loop/switch region; other site 882096004470 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 882096004471 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 882096004472 ATP binding site [chemical binding]; other site 882096004473 Mg2+ binding site [ion binding]; other site 882096004474 G-X-G motif; other site 882096004475 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 882096004476 ATP binding site [chemical binding]; other site 882096004477 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 882096004478 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 882096004479 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 882096004480 Pyruvate formate lyase 1; Region: PFL1; cd01678 882096004481 coenzyme A binding site [chemical binding]; other site 882096004482 active site 882096004483 catalytic residues [active] 882096004484 glycine loop; other site 882096004485 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 882096004486 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 882096004487 FeS/SAM binding site; other site 882096004488 Predicted transcriptional regulators [Transcription]; Region: COG1695 882096004489 Transcriptional regulator PadR-like family; Region: PadR; cl17335 882096004490 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 882096004491 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096004492 putative substrate translocation pore; other site 882096004493 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 882096004494 non-specific DNA binding site [nucleotide binding]; other site 882096004495 salt bridge; other site 882096004496 sequence-specific DNA binding site [nucleotide binding]; other site 882096004497 topology modulation protein; Provisional; Region: PRK07261 882096004498 AAA domain; Region: AAA_17; pfam13207 882096004499 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096004500 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096004501 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096004502 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096004503 putative acyltransferase; Provisional; Region: PRK05790 882096004504 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 882096004505 dimer interface [polypeptide binding]; other site 882096004506 active site 882096004507 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 882096004508 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 882096004509 dimer interface [polypeptide binding]; other site 882096004510 active site 882096004511 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 882096004512 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 882096004513 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 882096004514 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 882096004515 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 882096004516 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882096004517 Domain of unknown function DUF20; Region: UPF0118; pfam01594 882096004518 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 882096004519 FAD binding domain; Region: FAD_binding_4; pfam01565 882096004520 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 882096004521 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 882096004522 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 882096004523 Walker A/P-loop; other site 882096004524 ATP binding site [chemical binding]; other site 882096004525 Q-loop/lid; other site 882096004526 ABC transporter signature motif; other site 882096004527 Walker B; other site 882096004528 D-loop; other site 882096004529 H-loop/switch region; other site 882096004530 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 882096004531 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096004532 dimer interface [polypeptide binding]; other site 882096004533 conserved gate region; other site 882096004534 ABC-ATPase subunit interface; other site 882096004535 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 882096004536 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 882096004537 manganese transport protein MntH; Reviewed; Region: PRK00701 882096004538 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 882096004539 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096004540 dimer interface [polypeptide binding]; other site 882096004541 conserved gate region; other site 882096004542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 882096004543 ABC-ATPase subunit interface; other site 882096004544 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 882096004545 LysR substrate binding domain; Region: LysR_substrate; pfam03466 882096004546 dimerization interface [polypeptide binding]; other site 882096004547 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096004548 dimer interface [polypeptide binding]; other site 882096004549 conserved gate region; other site 882096004550 putative PBP binding loops; other site 882096004551 ABC-ATPase subunit interface; other site 882096004552 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 882096004553 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 882096004554 Walker A/P-loop; other site 882096004555 ATP binding site [chemical binding]; other site 882096004556 Q-loop/lid; other site 882096004557 ABC transporter signature motif; other site 882096004558 Walker B; other site 882096004559 D-loop; other site 882096004560 H-loop/switch region; other site 882096004561 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 882096004562 Predicted membrane protein [Function unknown]; Region: COG3859 882096004563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 882096004564 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 882096004565 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096004566 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096004567 ABC transporter; Region: ABC_tran_2; pfam12848 882096004568 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096004569 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 882096004570 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 882096004571 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096004572 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882096004573 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 882096004574 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882096004575 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 882096004576 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 882096004577 dihydrodipicolinate synthase; Region: dapA; TIGR00674 882096004578 dimer interface [polypeptide binding]; other site 882096004579 active site 882096004580 catalytic residue [active] 882096004581 aspartate kinase I; Reviewed; Region: PRK08210 882096004582 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 882096004583 nucleotide binding site [chemical binding]; other site 882096004584 substrate binding site [chemical binding]; other site 882096004585 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 882096004586 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 882096004587 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 882096004588 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 882096004589 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 882096004590 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 882096004591 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882096004592 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 882096004593 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 882096004594 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 882096004595 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 882096004596 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 882096004597 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 882096004598 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 882096004599 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 882096004600 Predicted membrane protein [Function unknown]; Region: COG4392 882096004601 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 882096004602 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 882096004603 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 882096004604 metal binding site 2 [ion binding]; metal-binding site 882096004605 putative DNA binding helix; other site 882096004606 metal binding site 1 [ion binding]; metal-binding site 882096004607 dimer interface [polypeptide binding]; other site 882096004608 structural Zn2+ binding site [ion binding]; other site 882096004609 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 882096004610 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 882096004611 ABC-ATPase subunit interface; other site 882096004612 dimer interface [polypeptide binding]; other site 882096004613 putative PBP binding regions; other site 882096004614 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 882096004615 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 882096004616 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 882096004617 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 882096004618 DHHA2 domain; Region: DHHA2; pfam02833 882096004619 endonuclease IV; Provisional; Region: PRK01060 882096004620 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 882096004621 AP (apurinic/apyrimidinic) site pocket; other site 882096004622 DNA interaction; other site 882096004623 Metal-binding active site; metal-binding site 882096004624 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 882096004625 DEAD-like helicases superfamily; Region: DEXDc; smart00487 882096004626 ATP binding site [chemical binding]; other site 882096004627 Mg++ binding site [ion binding]; other site 882096004628 motif III; other site 882096004629 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 882096004630 nucleotide binding region [chemical binding]; other site 882096004631 ATP-binding site [chemical binding]; other site 882096004632 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 882096004633 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 882096004634 Uncharacterized conserved protein [Function unknown]; Region: COG0327 882096004635 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 882096004636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 882096004637 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 882096004638 Uncharacterized conserved protein [Function unknown]; Region: COG0327 882096004639 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 882096004640 Family of unknown function (DUF633); Region: DUF633; pfam04816 882096004641 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 882096004642 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 882096004643 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 882096004644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882096004645 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882096004646 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 882096004647 DNA binding residues [nucleotide binding] 882096004648 DNA primase; Validated; Region: dnaG; PRK05667 882096004649 CHC2 zinc finger; Region: zf-CHC2; pfam01807 882096004650 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 882096004651 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 882096004652 active site 882096004653 metal binding site [ion binding]; metal-binding site 882096004654 interdomain interaction site; other site 882096004655 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 882096004656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 882096004657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 882096004658 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 882096004659 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 882096004660 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 882096004661 dimer interface [polypeptide binding]; other site 882096004662 motif 1; other site 882096004663 active site 882096004664 motif 2; other site 882096004665 motif 3; other site 882096004666 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 882096004667 Recombination protein O N terminal; Region: RecO_N; pfam11967 882096004668 Recombination protein O C terminal; Region: RecO_C; pfam02565 882096004669 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 882096004670 GTPase Era; Reviewed; Region: era; PRK00089 882096004671 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 882096004672 G1 box; other site 882096004673 GTP/Mg2+ binding site [chemical binding]; other site 882096004674 Switch I region; other site 882096004675 G2 box; other site 882096004676 Switch II region; other site 882096004677 G3 box; other site 882096004678 G4 box; other site 882096004679 G5 box; other site 882096004680 KH domain; Region: KH_2; pfam07650 882096004681 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 882096004682 active site 882096004683 catalytic motif [active] 882096004684 Zn binding site [ion binding]; other site 882096004685 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 882096004686 metal-binding heat shock protein; Provisional; Region: PRK00016 882096004687 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 882096004688 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 882096004689 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096004690 Zn2+ binding site [ion binding]; other site 882096004691 Mg2+ binding site [ion binding]; other site 882096004692 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 882096004693 PhoH-like protein; Region: PhoH; pfam02562 882096004694 Yqey-like protein; Region: YqeY; pfam09424 882096004695 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 882096004696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 882096004697 RNA methyltransferase, RsmE family; Region: TIGR00046 882096004698 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 882096004699 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 882096004700 S-adenosylmethionine binding site [chemical binding]; other site 882096004701 chaperone protein DnaJ; Provisional; Region: PRK14280 882096004702 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 882096004703 HSP70 interaction site [polypeptide binding]; other site 882096004704 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 882096004705 substrate binding site [polypeptide binding]; other site 882096004706 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 882096004707 Zn binding sites [ion binding]; other site 882096004708 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 882096004709 dimer interface [polypeptide binding]; other site 882096004710 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 882096004711 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 882096004712 nucleotide binding site [chemical binding]; other site 882096004713 NEF interaction site [polypeptide binding]; other site 882096004714 SBD interface [polypeptide binding]; other site 882096004715 heat shock protein GrpE; Provisional; Region: PRK14140 882096004716 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 882096004717 dimer interface [polypeptide binding]; other site 882096004718 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 882096004719 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 882096004720 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 882096004721 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 882096004722 HemN C-terminal domain; Region: HemN_C; pfam06969 882096004723 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882096004724 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 882096004725 NADP binding site [chemical binding]; other site 882096004726 putative substrate binding site [chemical binding]; other site 882096004727 active site 882096004728 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 882096004729 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 882096004730 DNA binding residues [nucleotide binding] 882096004731 putative dimer interface [polypeptide binding]; other site 882096004732 GTP-binding protein LepA; Provisional; Region: PRK05433 882096004733 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 882096004734 G1 box; other site 882096004735 putative GEF interaction site [polypeptide binding]; other site 882096004736 GTP/Mg2+ binding site [chemical binding]; other site 882096004737 Switch I region; other site 882096004738 G2 box; other site 882096004739 G3 box; other site 882096004740 Switch II region; other site 882096004741 G4 box; other site 882096004742 G5 box; other site 882096004743 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 882096004744 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 882096004745 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 882096004746 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 882096004747 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 882096004748 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 882096004749 Competence protein; Region: Competence; pfam03772 882096004750 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 882096004751 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882096004752 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 882096004753 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 882096004754 Competence protein; Region: Competence; pfam03772 882096004755 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 882096004756 catalytic motif [active] 882096004757 Zn binding site [ion binding]; other site 882096004758 SLBB domain; Region: SLBB; pfam10531 882096004759 comEA protein; Region: comE; TIGR01259 882096004760 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 882096004761 Methyltransferase domain; Region: Methyltransf_31; pfam13847 882096004762 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 882096004763 S-adenosylmethionine binding site [chemical binding]; other site 882096004764 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 882096004765 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096004766 Zn2+ binding site [ion binding]; other site 882096004767 Mg2+ binding site [ion binding]; other site 882096004768 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 882096004769 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 882096004770 active site 882096004771 (T/H)XGH motif; other site 882096004772 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 882096004773 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 882096004774 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 882096004775 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 882096004776 shikimate binding site; other site 882096004777 NAD(P) binding site [chemical binding]; other site 882096004778 GTPase YqeH; Provisional; Region: PRK13796 882096004779 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 882096004780 GTP/Mg2+ binding site [chemical binding]; other site 882096004781 G4 box; other site 882096004782 G5 box; other site 882096004783 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 882096004784 G1 box; other site 882096004785 G1 box; other site 882096004786 GTP/Mg2+ binding site [chemical binding]; other site 882096004787 G2 box; other site 882096004788 Switch I region; other site 882096004789 G2 box; other site 882096004790 Switch I region; other site 882096004791 G3 box; other site 882096004792 G3 box; other site 882096004793 Switch II region; other site 882096004794 Switch II region; other site 882096004795 G4 box; other site 882096004796 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 882096004797 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 882096004798 motif II; other site 882096004799 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 882096004800 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 882096004801 active site 882096004802 Zn binding site [ion binding]; other site 882096004803 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 882096004804 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 882096004805 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 882096004806 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 882096004807 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 882096004808 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 882096004809 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 882096004810 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 882096004811 Sugar specificity; other site 882096004812 Pyrimidine base specificity; other site 882096004813 ATP-binding site [chemical binding]; other site 882096004814 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 882096004815 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 882096004816 S-adenosylmethionine binding site [chemical binding]; other site 882096004817 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 882096004818 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 882096004819 dimerization interface [polypeptide binding]; other site 882096004820 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 882096004821 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 882096004822 hypothetical protein; Provisional; Region: PRK13678 882096004823 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 882096004824 hypothetical protein; Provisional; Region: PRK05473 882096004825 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 882096004826 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 882096004827 motif 1; other site 882096004828 active site 882096004829 motif 2; other site 882096004830 motif 3; other site 882096004831 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 882096004832 DHHA1 domain; Region: DHHA1; pfam02272 882096004833 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096004834 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096004835 Walker A/P-loop; other site 882096004836 ATP binding site [chemical binding]; other site 882096004837 Q-loop/lid; other site 882096004838 ABC transporter signature motif; other site 882096004839 Walker B; other site 882096004840 D-loop; other site 882096004841 H-loop/switch region; other site 882096004842 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882096004843 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 882096004844 FtsX-like permease family; Region: FtsX; pfam02687 882096004845 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096004846 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 882096004847 active site 882096004848 phosphorylation site [posttranslational modification] 882096004849 intermolecular recognition site; other site 882096004850 dimerization interface [polypeptide binding]; other site 882096004851 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 882096004852 DNA binding site [nucleotide binding] 882096004853 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 882096004854 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 882096004855 dimerization interface [polypeptide binding]; other site 882096004856 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 882096004857 dimer interface [polypeptide binding]; other site 882096004858 phosphorylation site [posttranslational modification] 882096004859 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 882096004860 ATP binding site [chemical binding]; other site 882096004861 Mg2+ binding site [ion binding]; other site 882096004862 G-X-G motif; other site 882096004863 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 882096004864 AAA domain; Region: AAA_30; pfam13604 882096004865 Family description; Region: UvrD_C_2; pfam13538 882096004866 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 882096004867 binding surface 882096004868 TPR motif; other site 882096004869 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 882096004870 TPR repeat; Region: TPR_11; pfam13414 882096004871 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 882096004872 binding surface 882096004873 TPR motif; other site 882096004874 TPR repeat; Region: TPR_11; pfam13414 882096004875 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 882096004876 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 882096004877 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 882096004878 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 882096004879 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 882096004880 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882096004881 catalytic residue [active] 882096004882 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 882096004883 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 882096004884 Walker A motif; other site 882096004885 ATP binding site [chemical binding]; other site 882096004886 Walker B motif; other site 882096004887 arginine finger; other site 882096004888 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 882096004889 Predicted transcriptional regulator [Transcription]; Region: COG1959 882096004890 Transcriptional regulator; Region: Rrf2; pfam02082 882096004891 Predicted transcriptional regulator [Transcription]; Region: COG1959 882096004892 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 882096004893 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 882096004894 Nitrogen regulatory protein P-II; Region: P-II; smart00938 882096004895 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 882096004896 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 882096004897 dimer interface [polypeptide binding]; other site 882096004898 anticodon binding site; other site 882096004899 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 882096004900 homodimer interface [polypeptide binding]; other site 882096004901 motif 1; other site 882096004902 active site 882096004903 motif 2; other site 882096004904 GAD domain; Region: GAD; pfam02938 882096004905 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 882096004906 active site 882096004907 motif 3; other site 882096004908 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 882096004909 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 882096004910 dimer interface [polypeptide binding]; other site 882096004911 motif 1; other site 882096004912 active site 882096004913 motif 2; other site 882096004914 motif 3; other site 882096004915 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 882096004916 anticodon binding site; other site 882096004917 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 882096004918 Bacterial SH3 domain; Region: SH3_3; pfam08239 882096004919 Bacterial SH3 domain; Region: SH3_3; pfam08239 882096004920 Bacterial SH3 domain homologues; Region: SH3b; smart00287 882096004921 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 882096004922 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 882096004923 active site 882096004924 metal binding site [ion binding]; metal-binding site 882096004925 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 882096004926 putative active site [active] 882096004927 dimerization interface [polypeptide binding]; other site 882096004928 putative tRNAtyr binding site [nucleotide binding]; other site 882096004929 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 882096004930 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096004931 Zn2+ binding site [ion binding]; other site 882096004932 Mg2+ binding site [ion binding]; other site 882096004933 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 882096004934 synthetase active site [active] 882096004935 NTP binding site [chemical binding]; other site 882096004936 metal binding site [ion binding]; metal-binding site 882096004937 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 882096004938 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 882096004939 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096004940 active site 882096004941 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 882096004942 DHH family; Region: DHH; pfam01368 882096004943 DHHA1 domain; Region: DHHA1; pfam02272 882096004944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 882096004945 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 882096004946 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 882096004947 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 882096004948 Protein export membrane protein; Region: SecD_SecF; cl14618 882096004949 Protein export membrane protein; Region: SecD_SecF; pfam02355 882096004950 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 882096004951 Preprotein translocase subunit; Region: YajC; pfam02699 882096004952 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 882096004953 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 882096004954 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 882096004955 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 882096004956 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 882096004957 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 882096004958 Walker A motif; other site 882096004959 ATP binding site [chemical binding]; other site 882096004960 Walker B motif; other site 882096004961 arginine finger; other site 882096004962 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 882096004963 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 882096004964 RuvA N terminal domain; Region: RuvA_N; pfam01330 882096004965 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 882096004966 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 882096004967 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096004968 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 882096004969 NAD binding site [chemical binding]; other site 882096004970 dimer interface [polypeptide binding]; other site 882096004971 substrate binding site [chemical binding]; other site 882096004972 hypothetical protein; Validated; Region: PRK00110 882096004973 prephenate dehydratase; Provisional; Region: PRK11898 882096004974 Prephenate dehydratase; Region: PDT; pfam00800 882096004975 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 882096004976 putative L-Phe binding site [chemical binding]; other site 882096004977 GTPase CgtA; Reviewed; Region: obgE; PRK12297 882096004978 GTP1/OBG; Region: GTP1_OBG; pfam01018 882096004979 Obg GTPase; Region: Obg; cd01898 882096004980 G1 box; other site 882096004981 GTP/Mg2+ binding site [chemical binding]; other site 882096004982 Switch I region; other site 882096004983 G2 box; other site 882096004984 G3 box; other site 882096004985 Switch II region; other site 882096004986 G4 box; other site 882096004987 G5 box; other site 882096004988 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 882096004989 glycerol kinase; Provisional; Region: glpK; PRK00047 882096004990 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 882096004991 N- and C-terminal domain interface [polypeptide binding]; other site 882096004992 active site 882096004993 MgATP binding site [chemical binding]; other site 882096004994 catalytic site [active] 882096004995 metal binding site [ion binding]; metal-binding site 882096004996 glycerol binding site [chemical binding]; other site 882096004997 homotetramer interface [polypeptide binding]; other site 882096004998 homodimer interface [polypeptide binding]; other site 882096004999 FBP binding site [chemical binding]; other site 882096005000 protein IIAGlc interface [polypeptide binding]; other site 882096005001 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 882096005002 amphipathic channel; other site 882096005003 Asn-Pro-Ala signature motifs; other site 882096005004 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 882096005005 hypothetical protein; Provisional; Region: PRK14553 882096005006 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 882096005007 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 882096005008 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 882096005009 homodimer interface [polypeptide binding]; other site 882096005010 oligonucleotide binding site [chemical binding]; other site 882096005011 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 882096005012 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 882096005013 Switch I; other site 882096005014 Switch II; other site 882096005015 septum formation inhibitor; Reviewed; Region: minC; PRK00513 882096005016 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 882096005017 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 882096005018 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 882096005019 Protein of unknown function (DUF972); Region: DUF972; pfam06156 882096005020 rod shape-determining protein MreC; Region: MreC; pfam04085 882096005021 rod shape-determining protein MreB; Provisional; Region: PRK13927 882096005022 MreB and similar proteins; Region: MreB_like; cd10225 882096005023 nucleotide binding site [chemical binding]; other site 882096005024 Mg binding site [ion binding]; other site 882096005025 putative protofilament interaction site [polypeptide binding]; other site 882096005026 RodZ interaction site [polypeptide binding]; other site 882096005027 hypothetical protein; Reviewed; Region: PRK00024 882096005028 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 882096005029 MPN+ (JAMM) motif; other site 882096005030 Zinc-binding site [ion binding]; other site 882096005031 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 882096005032 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 882096005033 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 882096005034 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882096005035 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882096005036 AAA domain; Region: AAA_14; pfam13173 882096005037 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 882096005038 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 882096005039 active site 882096005040 HIGH motif; other site 882096005041 nucleotide binding site [chemical binding]; other site 882096005042 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 882096005043 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 882096005044 active site 882096005045 KMSKS motif; other site 882096005046 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 882096005047 tRNA binding surface [nucleotide binding]; other site 882096005048 anticodon binding site; other site 882096005049 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 882096005050 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 882096005051 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 882096005052 inhibitor-cofactor binding pocket; inhibition site 882096005053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096005054 catalytic residue [active] 882096005055 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 882096005056 dimer interface [polypeptide binding]; other site 882096005057 active site 882096005058 Schiff base residues; other site 882096005059 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 882096005060 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 882096005061 active site 882096005062 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 882096005063 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 882096005064 domain interfaces; other site 882096005065 active site 882096005066 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 882096005067 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 882096005068 tRNA; other site 882096005069 putative tRNA binding site [nucleotide binding]; other site 882096005070 putative NADP binding site [chemical binding]; other site 882096005071 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 882096005072 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 882096005073 G1 box; other site 882096005074 GTP/Mg2+ binding site [chemical binding]; other site 882096005075 Switch I region; other site 882096005076 G2 box; other site 882096005077 G3 box; other site 882096005078 Switch II region; other site 882096005079 G4 box; other site 882096005080 G5 box; other site 882096005081 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 882096005082 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 882096005083 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 882096005084 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 882096005085 active site 882096005086 dimer interface [polypeptide binding]; other site 882096005087 motif 1; other site 882096005088 motif 2; other site 882096005089 motif 3; other site 882096005090 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 882096005091 anticodon binding site; other site 882096005092 primosomal protein DnaI; Reviewed; Region: PRK08939 882096005093 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 882096005094 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 882096005095 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 882096005096 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 882096005097 ATP cone domain; Region: ATP-cone; pfam03477 882096005098 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 882096005099 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 882096005100 CoA-binding site [chemical binding]; other site 882096005101 ATP-binding [chemical binding]; other site 882096005102 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 882096005103 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 882096005104 DNA binding site [nucleotide binding] 882096005105 catalytic residue [active] 882096005106 H2TH interface [polypeptide binding]; other site 882096005107 putative catalytic residues [active] 882096005108 turnover-facilitating residue; other site 882096005109 intercalation triad [nucleotide binding]; other site 882096005110 8OG recognition residue [nucleotide binding]; other site 882096005111 putative reading head residues; other site 882096005112 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 882096005113 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 882096005114 DNA polymerase I; Provisional; Region: PRK05755 882096005115 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 882096005116 active site 882096005117 metal binding site 1 [ion binding]; metal-binding site 882096005118 putative 5' ssDNA interaction site; other site 882096005119 metal binding site 3; metal-binding site 882096005120 metal binding site 2 [ion binding]; metal-binding site 882096005121 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 882096005122 putative DNA binding site [nucleotide binding]; other site 882096005123 putative metal binding site [ion binding]; other site 882096005124 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 882096005125 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 882096005126 active site 882096005127 DNA binding site [nucleotide binding] 882096005128 catalytic site [active] 882096005129 isocitrate dehydrogenase; Reviewed; Region: PRK07006 882096005130 isocitrate dehydrogenase; Validated; Region: PRK07362 882096005131 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 882096005132 dimer interface [polypeptide binding]; other site 882096005133 Citrate synthase; Region: Citrate_synt; pfam00285 882096005134 active site 882096005135 citrylCoA binding site [chemical binding]; other site 882096005136 oxalacetate/citrate binding site [chemical binding]; other site 882096005137 coenzyme A binding site [chemical binding]; other site 882096005138 catalytic triad [active] 882096005139 Protein of unknown function (DUF441); Region: DUF441; pfam04284 882096005140 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 882096005141 pyruvate kinase; Provisional; Region: PRK06354 882096005142 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 882096005143 domain interfaces; other site 882096005144 active site 882096005145 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 882096005146 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 882096005147 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 882096005148 active site 882096005149 ADP/pyrophosphate binding site [chemical binding]; other site 882096005150 dimerization interface [polypeptide binding]; other site 882096005151 allosteric effector site; other site 882096005152 fructose-1,6-bisphosphate binding site; other site 882096005153 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 882096005154 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 882096005155 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 882096005156 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 882096005157 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 882096005158 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 882096005159 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 882096005160 active site 882096005161 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 882096005162 generic binding surface I; other site 882096005163 generic binding surface II; other site 882096005164 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 882096005165 DHH family; Region: DHH; pfam01368 882096005166 DHHA1 domain; Region: DHHA1; pfam02272 882096005167 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 882096005168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 882096005169 DNA-binding site [nucleotide binding]; DNA binding site 882096005170 DRTGG domain; Region: DRTGG; pfam07085 882096005171 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 882096005172 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 882096005173 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 882096005174 metal-dependent hydrolase; Provisional; Region: PRK00685 882096005175 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 882096005176 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 882096005177 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 882096005178 active site 882096005179 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 882096005180 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 882096005181 hexamer interface [polypeptide binding]; other site 882096005182 ligand binding site [chemical binding]; other site 882096005183 putative active site [active] 882096005184 NAD(P) binding site [chemical binding]; other site 882096005185 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 882096005186 Ligand Binding Site [chemical binding]; other site 882096005187 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 882096005188 propionate/acetate kinase; Provisional; Region: PRK12379 882096005189 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 882096005190 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 882096005191 S-adenosylmethionine binding site [chemical binding]; other site 882096005192 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 882096005193 dimer interface [polypeptide binding]; other site 882096005194 catalytic triad [active] 882096005195 peroxidatic and resolving cysteines [active] 882096005196 RDD family; Region: RDD; pfam06271 882096005197 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 882096005198 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 882096005199 tandem repeat interface [polypeptide binding]; other site 882096005200 oligomer interface [polypeptide binding]; other site 882096005201 active site residues [active] 882096005202 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 882096005203 ATP-NAD kinase; Region: NAD_kinase; pfam01513 882096005204 ornithine carbamoyltransferase; Provisional; Region: PRK00779 882096005205 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882096005206 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882096005207 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 882096005208 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 882096005209 inhibitor-cofactor binding pocket; inhibition site 882096005210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096005211 catalytic residue [active] 882096005212 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 882096005213 nucleotide binding site [chemical binding]; other site 882096005214 N-acetyl-L-glutamate binding site [chemical binding]; other site 882096005215 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 882096005216 heterotetramer interface [polypeptide binding]; other site 882096005217 active site pocket [active] 882096005218 cleavage site 882096005219 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 882096005220 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 882096005221 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 882096005222 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 882096005223 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 882096005224 Ligand Binding Site [chemical binding]; other site 882096005225 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 882096005226 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 882096005227 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882096005228 catalytic residue [active] 882096005229 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 882096005230 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 882096005231 GAF domain; Region: GAF_2; pfam13185 882096005232 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 882096005233 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 882096005234 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 882096005235 RNA binding surface [nucleotide binding]; other site 882096005236 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 882096005237 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 882096005238 active site 882096005239 HIGH motif; other site 882096005240 dimer interface [polypeptide binding]; other site 882096005241 KMSKS motif; other site 882096005242 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 882096005243 RNA binding surface [nucleotide binding]; other site 882096005244 catabolite control protein A; Region: ccpA; TIGR01481 882096005245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096005246 DNA binding site [nucleotide binding] 882096005247 domain linker motif; other site 882096005248 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 882096005249 dimerization interface [polypeptide binding]; other site 882096005250 effector binding site; other site 882096005251 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 882096005252 Chorismate mutase type II; Region: CM_2; cl00693 882096005253 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 882096005254 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 882096005255 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 882096005256 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 882096005257 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 882096005258 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 882096005259 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 882096005260 dimer interface [polypeptide binding]; other site 882096005261 decamer (pentamer of dimers) interface [polypeptide binding]; other site 882096005262 catalytic triad [active] 882096005263 peroxidatic and resolving cysteines [active] 882096005264 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 882096005265 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882096005266 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882096005267 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882096005268 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 882096005269 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 882096005270 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 882096005271 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 882096005272 putative tRNA-binding site [nucleotide binding]; other site 882096005273 hypothetical protein; Provisional; Region: PRK13668 882096005274 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 882096005275 catalytic residues [active] 882096005276 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 882096005277 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 882096005278 oligomer interface [polypeptide binding]; other site 882096005279 active site 882096005280 metal binding site [ion binding]; metal-binding site 882096005281 Predicted small secreted protein [Function unknown]; Region: COG5584 882096005282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1937 882096005283 putative homodimer interface [polypeptide binding]; other site 882096005284 putative homotetramer interface [polypeptide binding]; other site 882096005285 putative allosteric switch controlling residues; other site 882096005286 putative metal binding site [ion binding]; other site 882096005287 putative homodimer-homodimer interface [polypeptide binding]; other site 882096005288 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882096005289 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 882096005290 S-adenosylmethionine binding site [chemical binding]; other site 882096005291 Phosphotransferase enzyme family; Region: APH; pfam01636 882096005292 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 882096005293 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 882096005294 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 882096005295 putative substrate translocation pore; other site 882096005296 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 882096005297 MarR family; Region: MarR; pfam01047 882096005298 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 882096005299 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 882096005300 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 882096005301 homodimer interface [polypeptide binding]; other site 882096005302 substrate-cofactor binding pocket; other site 882096005303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096005304 catalytic residue [active] 882096005305 dipeptidase PepV; Reviewed; Region: PRK07318 882096005306 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 882096005307 active site 882096005308 metal binding site [ion binding]; metal-binding site 882096005309 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_39; cd04699 882096005310 nudix motif; other site 882096005311 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 882096005312 putative substrate binding site [chemical binding]; other site 882096005313 putative ATP binding site [chemical binding]; other site 882096005314 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 882096005315 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 882096005316 active site 882096005317 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 882096005318 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 882096005319 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 882096005320 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 882096005321 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 882096005322 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 882096005323 substrate binding site [chemical binding]; other site 882096005324 active site 882096005325 catalytic residues [active] 882096005326 heterodimer interface [polypeptide binding]; other site 882096005327 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 882096005328 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 882096005329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096005330 catalytic residue [active] 882096005331 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 882096005332 active site 882096005333 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 882096005334 active site 882096005335 ribulose/triose binding site [chemical binding]; other site 882096005336 phosphate binding site [ion binding]; other site 882096005337 substrate (anthranilate) binding pocket [chemical binding]; other site 882096005338 product (indole) binding pocket [chemical binding]; other site 882096005339 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 882096005340 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 882096005341 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 882096005342 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 882096005343 Glutamine amidotransferase class-I; Region: GATase; pfam00117 882096005344 glutamine binding [chemical binding]; other site 882096005345 catalytic triad [active] 882096005346 anthranilate synthase component I; Provisional; Region: PRK13570 882096005347 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 882096005348 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 882096005349 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 882096005350 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 882096005351 putative catalytic cysteine [active] 882096005352 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 882096005353 putative active site [active] 882096005354 metal binding site [ion binding]; metal-binding site 882096005355 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 882096005356 dimer interface [polypeptide binding]; other site 882096005357 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882096005358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096005359 Walker A/P-loop; other site 882096005360 ATP binding site [chemical binding]; other site 882096005361 Q-loop/lid; other site 882096005362 ABC transporter signature motif; other site 882096005363 Walker B; other site 882096005364 D-loop; other site 882096005365 H-loop/switch region; other site 882096005366 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 882096005367 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 882096005368 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 882096005369 putative dimer interface [polypeptide binding]; other site 882096005370 catalytic triad [active] 882096005371 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 882096005372 aconitate hydratase; Validated; Region: PRK09277 882096005373 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 882096005374 substrate binding site [chemical binding]; other site 882096005375 ligand binding site [chemical binding]; other site 882096005376 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 882096005377 substrate binding site [chemical binding]; other site 882096005378 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 882096005379 Heat induced stress protein YflT; Region: YflT; pfam11181 882096005380 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 882096005381 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 882096005382 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 882096005383 ATP binding site [chemical binding]; other site 882096005384 putative Mg++ binding site [ion binding]; other site 882096005385 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 882096005386 nucleotide binding region [chemical binding]; other site 882096005387 ATP-binding site [chemical binding]; other site 882096005388 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 882096005389 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 882096005390 Walker A/P-loop; other site 882096005391 ATP binding site [chemical binding]; other site 882096005392 Q-loop/lid; other site 882096005393 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 882096005394 ABC transporter signature motif; other site 882096005395 Walker B; other site 882096005396 D-loop; other site 882096005397 H-loop/switch region; other site 882096005398 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 882096005399 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 882096005400 active site 882096005401 metal binding site [ion binding]; metal-binding site 882096005402 DNA binding site [nucleotide binding] 882096005403 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 882096005404 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 882096005405 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 882096005406 putative acyl-acceptor binding pocket; other site 882096005407 Membrane protein involved in cytochrome C biogenesis [Posttranslational modification, protein turnover, chaperones]; Region: CcdC; COG4846 882096005408 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096005409 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096005410 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 882096005411 Walker A/P-loop; other site 882096005412 ATP binding site [chemical binding]; other site 882096005413 Q-loop/lid; other site 882096005414 ABC transporter signature motif; other site 882096005415 Walker B; other site 882096005416 D-loop; other site 882096005417 H-loop/switch region; other site 882096005418 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096005419 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 882096005420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096005421 Walker A/P-loop; other site 882096005422 ATP binding site [chemical binding]; other site 882096005423 Q-loop/lid; other site 882096005424 ABC transporter signature motif; other site 882096005425 Walker B; other site 882096005426 D-loop; other site 882096005427 H-loop/switch region; other site 882096005428 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 882096005429 active site 882096005430 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 882096005431 elongation factor Ts; Provisional; Region: tsf; PRK09377 882096005432 UBA/TS-N domain; Region: UBA; pfam00627 882096005433 Elongation factor TS; Region: EF_TS; pfam00889 882096005434 Elongation factor TS; Region: EF_TS; pfam00889 882096005435 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 882096005436 rRNA interaction site [nucleotide binding]; other site 882096005437 S8 interaction site; other site 882096005438 putative laminin-1 binding site; other site 882096005439 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 882096005440 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 882096005441 HIGH motif; other site 882096005442 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 882096005443 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 882096005444 active site 882096005445 KMSKS motif; other site 882096005446 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 882096005447 tRNA binding surface [nucleotide binding]; other site 882096005448 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 882096005449 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 882096005450 FeS/SAM binding site; other site 882096005451 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 882096005452 S-adenosylmethionine binding site [chemical binding]; other site 882096005453 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 882096005454 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 882096005455 active site 882096005456 dimer interface [polypeptide binding]; other site 882096005457 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 882096005458 Ligand Binding Site [chemical binding]; other site 882096005459 Molecular Tunnel; other site 882096005460 S-adenosylmethionine synthetase; Validated; Region: PRK05250 882096005461 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 882096005462 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 882096005463 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 882096005464 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 882096005465 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 882096005466 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 882096005467 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096005468 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 882096005469 NAD binding site [chemical binding]; other site 882096005470 dimer interface [polypeptide binding]; other site 882096005471 substrate binding site [chemical binding]; other site 882096005472 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 882096005473 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 882096005474 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_8; cd04665 882096005475 nudix motif; other site 882096005476 Uncharacterized conserved protein [Function unknown]; Region: COG0759 882096005477 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 882096005478 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 882096005479 metal binding site [ion binding]; metal-binding site 882096005480 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 882096005481 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 882096005482 acyl-activating enzyme (AAE) consensus motif; other site 882096005483 putative AMP binding site [chemical binding]; other site 882096005484 putative active site [active] 882096005485 putative CoA binding site [chemical binding]; other site 882096005486 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 882096005487 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 882096005488 substrate binding site [chemical binding]; other site 882096005489 oxyanion hole (OAH) forming residues; other site 882096005490 trimer interface [polypeptide binding]; other site 882096005491 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 882096005492 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 882096005493 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 882096005494 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 882096005495 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 882096005496 dimer interface [polypeptide binding]; other site 882096005497 tetramer interface [polypeptide binding]; other site 882096005498 PYR/PP interface [polypeptide binding]; other site 882096005499 TPP binding site [chemical binding]; other site 882096005500 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 882096005501 TPP-binding site; other site 882096005502 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 882096005503 chorismate binding enzyme; Region: Chorismate_bind; cl10555 882096005504 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 882096005505 UbiA prenyltransferase family; Region: UbiA; pfam01040 882096005506 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 882096005507 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 882096005508 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 882096005509 FAD binding site [chemical binding]; other site 882096005510 cystathionine beta-lyase; Provisional; Region: PRK08064 882096005511 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 882096005512 homodimer interface [polypeptide binding]; other site 882096005513 substrate-cofactor binding pocket; other site 882096005514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096005515 catalytic residue [active] 882096005516 cystathionine gamma-synthase; Reviewed; Region: PRK08247 882096005517 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 882096005518 homodimer interface [polypeptide binding]; other site 882096005519 substrate-cofactor binding pocket; other site 882096005520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096005521 catalytic residue [active] 882096005522 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 882096005523 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 882096005524 THF binding site; other site 882096005525 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 882096005526 substrate binding site [chemical binding]; other site 882096005527 THF binding site; other site 882096005528 zinc-binding site [ion binding]; other site 882096005529 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 882096005530 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096005531 putative substrate translocation pore; other site 882096005532 ferric uptake regulator; Provisional; Region: fur; PRK09462 882096005533 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 882096005534 metal binding site 2 [ion binding]; metal-binding site 882096005535 putative DNA binding helix; other site 882096005536 metal binding site 1 [ion binding]; metal-binding site 882096005537 dimer interface [polypeptide binding]; other site 882096005538 structural Zn2+ binding site [ion binding]; other site 882096005539 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 882096005540 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 882096005541 NAD binding site [chemical binding]; other site 882096005542 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 882096005543 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 882096005544 inhibitor-cofactor binding pocket; inhibition site 882096005545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096005546 catalytic residue [active] 882096005547 Predicted membrane protein [Function unknown]; Region: COG4129 882096005548 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 882096005549 hypothetical protein; Provisional; Region: PRK13662 882096005550 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 882096005551 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 882096005552 putative NAD(P) binding site [chemical binding]; other site 882096005553 active site 882096005554 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 882096005555 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882096005556 minor groove reading motif; other site 882096005557 helix-hairpin-helix signature motif; other site 882096005558 substrate binding pocket [chemical binding]; other site 882096005559 active site 882096005560 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 882096005561 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 882096005562 DNA binding and oxoG recognition site [nucleotide binding] 882096005563 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 882096005564 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 882096005565 trimer interface [polypeptide binding]; other site 882096005566 active site 882096005567 WVELL protein; Region: WVELL; pfam14043 882096005568 recombination regulator RecX; Provisional; Region: recX; PRK14135 882096005569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882096005570 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 882096005571 NAD(P) binding site [chemical binding]; other site 882096005572 active site 882096005573 Predicted integral membrane protein [Function unknown]; Region: COG0392 882096005574 Uncharacterized conserved protein [Function unknown]; Region: COG2898 882096005575 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 882096005576 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 882096005577 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 882096005578 Cation efflux family; Region: Cation_efflux; pfam01545 882096005579 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882096005580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 882096005581 PAS fold; Region: PAS_4; pfam08448 882096005582 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 882096005583 putative active site [active] 882096005584 heme pocket [chemical binding]; other site 882096005585 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 882096005586 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882096005587 dimer interface [polypeptide binding]; other site 882096005588 putative CheW interface [polypeptide binding]; other site 882096005589 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 882096005590 FosX, a fosfomycin resistance protein, catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1; Region: FosX; cd08364 882096005591 dimer interface [polypeptide binding]; other site 882096005592 active site 882096005593 Mn binding site [ion binding]; other site 882096005594 TRAM domain; Region: TRAM; cl01282 882096005595 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 882096005596 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 882096005597 S-adenosylmethionine binding site [chemical binding]; other site 882096005598 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 882096005599 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 882096005600 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 882096005601 Substrate-binding site [chemical binding]; other site 882096005602 Substrate specificity [chemical binding]; other site 882096005603 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 882096005604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4840 882096005605 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 882096005606 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 882096005607 active site 882096005608 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 882096005609 flavodoxin, short chain; Region: flav_short; TIGR01753 882096005610 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 882096005611 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 882096005612 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 882096005613 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096005614 putative substrate translocation pore; other site 882096005615 rod-share determining protein MreBH; Provisional; Region: PRK13929 882096005616 MreB and similar proteins; Region: MreB_like; cd10225 882096005617 nucleotide binding site [chemical binding]; other site 882096005618 Mg binding site [ion binding]; other site 882096005619 putative protofilament interaction site [polypeptide binding]; other site 882096005620 RodZ interaction site [polypeptide binding]; other site 882096005621 Methyltransferase domain; Region: Methyltransf_31; pfam13847 882096005622 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 882096005623 S-adenosylmethionine binding site [chemical binding]; other site 882096005624 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096005625 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096005626 Uncharacterized conserved protein [Function unknown]; Region: COG3589 882096005627 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 882096005628 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096005629 methionine cluster; other site 882096005630 active site 882096005631 phosphorylation site [posttranslational modification] 882096005632 metal binding site [ion binding]; metal-binding site 882096005633 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096005634 active site 882096005635 P-loop; other site 882096005636 phosphorylation site [posttranslational modification] 882096005637 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 882096005638 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 882096005639 Walker A motif; other site 882096005640 ATP binding site [chemical binding]; other site 882096005641 Walker B motif; other site 882096005642 arginine finger; other site 882096005643 Transcriptional antiterminator [Transcription]; Region: COG3933 882096005644 PRD domain; Region: PRD; pfam00874 882096005645 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 882096005646 active pocket/dimerization site; other site 882096005647 active site 882096005648 phosphorylation site [posttranslational modification] 882096005649 PRD domain; Region: PRD; pfam00874 882096005650 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 882096005651 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 882096005652 ATP binding site [chemical binding]; other site 882096005653 putative Mg++ binding site [ion binding]; other site 882096005654 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 882096005655 nucleotide binding region [chemical binding]; other site 882096005656 ATP-binding site [chemical binding]; other site 882096005657 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 882096005658 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882096005659 Walker A/P-loop; other site 882096005660 ATP binding site [chemical binding]; other site 882096005661 Q-loop/lid; other site 882096005662 ABC transporter signature motif; other site 882096005663 Walker B; other site 882096005664 D-loop; other site 882096005665 H-loop/switch region; other site 882096005666 Predicted transcriptional regulators [Transcription]; Region: COG1725 882096005667 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096005668 DNA-binding site [nucleotide binding]; DNA binding site 882096005669 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882096005670 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096005671 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096005672 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096005673 DNA binding site [nucleotide binding] 882096005674 domain linker motif; other site 882096005675 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 882096005676 dimerization interface [polypeptide binding]; other site 882096005677 ligand binding site [chemical binding]; other site 882096005678 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 882096005679 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 882096005680 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 882096005681 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 882096005682 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882096005683 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 882096005684 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 882096005685 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 882096005686 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882096005687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096005688 dimer interface [polypeptide binding]; other site 882096005689 conserved gate region; other site 882096005690 putative PBP binding loops; other site 882096005691 ABC-ATPase subunit interface; other site 882096005692 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 882096005693 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882096005694 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 882096005695 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 882096005696 active site 882096005697 dimer interface [polypeptide binding]; other site 882096005698 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 882096005699 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 882096005700 active site 882096005701 FMN binding site [chemical binding]; other site 882096005702 substrate binding site [chemical binding]; other site 882096005703 3Fe-4S cluster binding site [ion binding]; other site 882096005704 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 882096005705 domain interface; other site 882096005706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096005707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096005708 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 882096005709 putative dimerization interface [polypeptide binding]; other site 882096005710 Predicted acetyltransferase [General function prediction only]; Region: COG3153 882096005711 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 882096005712 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 882096005713 putative active site [active] 882096005714 metal binding site [ion binding]; metal-binding site 882096005715 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882096005716 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 882096005717 substrate binding pocket [chemical binding]; other site 882096005718 membrane-bound complex binding site; other site 882096005719 hinge residues; other site 882096005720 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096005721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096005722 Walker A/P-loop; other site 882096005723 ATP binding site [chemical binding]; other site 882096005724 Q-loop/lid; other site 882096005725 ABC transporter signature motif; other site 882096005726 Walker B; other site 882096005727 D-loop; other site 882096005728 H-loop/switch region; other site 882096005729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096005730 dimer interface [polypeptide binding]; other site 882096005731 conserved gate region; other site 882096005732 putative PBP binding loops; other site 882096005733 ABC-ATPase subunit interface; other site 882096005734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882096005735 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 882096005736 dimer interface [polypeptide binding]; other site 882096005737 phosphorylation site [posttranslational modification] 882096005738 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 882096005739 ATP binding site [chemical binding]; other site 882096005740 Mg2+ binding site [ion binding]; other site 882096005741 G-X-G motif; other site 882096005742 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 882096005743 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 882096005744 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 882096005745 active site 882096005746 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 882096005747 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882096005748 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 882096005749 putative NAD(P) binding site [chemical binding]; other site 882096005750 active site 882096005751 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096005752 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 882096005753 active site 882096005754 phosphorylation site [posttranslational modification] 882096005755 intermolecular recognition site; other site 882096005756 dimerization interface [polypeptide binding]; other site 882096005757 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 882096005758 DNA binding site [nucleotide binding] 882096005759 FtsX-like permease family; Region: FtsX; pfam02687 882096005760 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 882096005761 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096005762 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096005763 Walker A/P-loop; other site 882096005764 ATP binding site [chemical binding]; other site 882096005765 Q-loop/lid; other site 882096005766 ABC transporter signature motif; other site 882096005767 Walker B; other site 882096005768 D-loop; other site 882096005769 H-loop/switch region; other site 882096005770 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 882096005771 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 882096005772 ADP binding site [chemical binding]; other site 882096005773 magnesium binding site [ion binding]; other site 882096005774 putative shikimate binding site; other site 882096005775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 882096005776 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 882096005777 TRAM domain; Region: TRAM; pfam01938 882096005778 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 882096005779 S-adenosylmethionine binding site [chemical binding]; other site 882096005780 putative lipid kinase; Reviewed; Region: PRK13337 882096005781 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 882096005782 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 882096005783 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 882096005784 GatB domain; Region: GatB_Yqey; pfam02637 882096005785 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 882096005786 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 882096005787 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 882096005788 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 882096005789 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 882096005790 putative dimer interface [polypeptide binding]; other site 882096005791 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 882096005792 putative dimer interface [polypeptide binding]; other site 882096005793 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 882096005794 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 882096005795 nucleotide binding pocket [chemical binding]; other site 882096005796 K-X-D-G motif; other site 882096005797 catalytic site [active] 882096005798 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 882096005799 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 882096005800 Dimer interface [polypeptide binding]; other site 882096005801 BRCT sequence motif; other site 882096005802 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 882096005803 Part of AAA domain; Region: AAA_19; pfam13245 882096005804 Family description; Region: UvrD_C_2; pfam13538 882096005805 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 882096005806 PcrB family; Region: PcrB; pfam01884 882096005807 substrate binding site [chemical binding]; other site 882096005808 putative active site [active] 882096005809 dimer interface [polypeptide binding]; other site 882096005810 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 882096005811 Na2 binding site [ion binding]; other site 882096005812 putative substrate binding site 1 [chemical binding]; other site 882096005813 Na binding site 1 [ion binding]; other site 882096005814 putative substrate binding site 2 [chemical binding]; other site 882096005815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 882096005816 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 882096005817 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 882096005818 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 882096005819 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 882096005820 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 882096005821 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 882096005822 purine monophosphate binding site [chemical binding]; other site 882096005823 dimer interface [polypeptide binding]; other site 882096005824 putative catalytic residues [active] 882096005825 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 882096005826 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 882096005827 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 882096005828 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 882096005829 active site 882096005830 substrate binding site [chemical binding]; other site 882096005831 cosubstrate binding site; other site 882096005832 catalytic site [active] 882096005833 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 882096005834 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 882096005835 dimerization interface [polypeptide binding]; other site 882096005836 putative ATP binding site [chemical binding]; other site 882096005837 amidophosphoribosyltransferase; Provisional; Region: PRK06781 882096005838 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 882096005839 active site 882096005840 tetramer interface [polypeptide binding]; other site 882096005841 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096005842 active site 882096005843 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 882096005844 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 882096005845 dimerization interface [polypeptide binding]; other site 882096005846 ATP binding site [chemical binding]; other site 882096005847 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 882096005848 dimerization interface [polypeptide binding]; other site 882096005849 ATP binding site [chemical binding]; other site 882096005850 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 882096005851 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 882096005852 putative active site [active] 882096005853 catalytic triad [active] 882096005854 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 882096005855 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 882096005856 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 882096005857 ATP binding site [chemical binding]; other site 882096005858 active site 882096005859 substrate binding site [chemical binding]; other site 882096005860 adenylosuccinate lyase; Provisional; Region: PRK07492 882096005861 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 882096005862 tetramer interface [polypeptide binding]; other site 882096005863 active site 882096005864 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 882096005865 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 882096005866 NAD binding site [chemical binding]; other site 882096005867 ATP-grasp domain; Region: ATP-grasp; pfam02222 882096005868 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 882096005869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 882096005870 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882096005871 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 882096005872 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096005873 Zn2+ binding site [ion binding]; other site 882096005874 Mg2+ binding site [ion binding]; other site 882096005875 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 882096005876 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096005877 Walker A/P-loop; other site 882096005878 ATP binding site [chemical binding]; other site 882096005879 Q-loop/lid; other site 882096005880 ABC transporter signature motif; other site 882096005881 Walker B; other site 882096005882 D-loop; other site 882096005883 H-loop/switch region; other site 882096005884 peptidase T; Region: peptidase-T; TIGR01882 882096005885 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 882096005886 metal binding site [ion binding]; metal-binding site 882096005887 dimer interface [polypeptide binding]; other site 882096005888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 882096005889 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 882096005890 active site 882096005891 putative catalytic site [active] 882096005892 DNA binding site [nucleotide binding] 882096005893 putative phosphate binding site [ion binding]; other site 882096005894 metal binding site A [ion binding]; metal-binding site 882096005895 AP binding site [nucleotide binding]; other site 882096005896 metal binding site B [ion binding]; metal-binding site 882096005897 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 882096005898 23S rRNA binding site [nucleotide binding]; other site 882096005899 L21 binding site [polypeptide binding]; other site 882096005900 L13 binding site [polypeptide binding]; other site 882096005901 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 882096005902 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 882096005903 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 882096005904 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 882096005905 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096005906 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096005907 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096005908 Substrate binding site [chemical binding]; other site 882096005909 Leucine rich repeat; Region: LRR_8; pfam13855 882096005910 LRR adjacent; Region: LRR_adjacent; pfam08191 882096005911 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 882096005912 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 882096005913 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 882096005914 DNA binding residues [nucleotide binding] 882096005915 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 882096005916 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 882096005917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882096005918 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 882096005919 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 882096005920 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 882096005921 RimM N-terminal domain; Region: RimM; pfam01782 882096005922 PRC-barrel domain; Region: PRC; pfam05239 882096005923 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 882096005924 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 882096005925 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 882096005926 catalytic triad [active] 882096005927 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 882096005928 KH domain; Region: KH_4; pfam13083 882096005929 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 882096005930 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 882096005931 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 882096005932 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 882096005933 signal recognition particle protein; Provisional; Region: PRK10867 882096005934 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 882096005935 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 882096005936 P loop; other site 882096005937 GTP binding site [chemical binding]; other site 882096005938 Signal peptide binding domain; Region: SRP_SPB; pfam02978 882096005939 putative DNA-binding protein; Validated; Region: PRK00118 882096005940 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 882096005941 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 882096005942 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 882096005943 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 882096005944 P loop; other site 882096005945 GTP binding site [chemical binding]; other site 882096005946 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 882096005947 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 882096005948 Walker A/P-loop; other site 882096005949 ATP binding site [chemical binding]; other site 882096005950 Q-loop/lid; other site 882096005951 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 882096005952 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 882096005953 ABC transporter signature motif; other site 882096005954 Walker B; other site 882096005955 D-loop; other site 882096005956 H-loop/switch region; other site 882096005957 ribonuclease III; Reviewed; Region: rnc; PRK00102 882096005958 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 882096005959 dimerization interface [polypeptide binding]; other site 882096005960 active site 882096005961 metal binding site [ion binding]; metal-binding site 882096005962 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 882096005963 dsRNA binding site [nucleotide binding]; other site 882096005964 acyl carrier protein; Provisional; Region: acpP; PRK00982 882096005965 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 882096005966 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 882096005967 NAD(P) binding site [chemical binding]; other site 882096005968 homotetramer interface [polypeptide binding]; other site 882096005969 homodimer interface [polypeptide binding]; other site 882096005970 active site 882096005971 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 882096005972 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 882096005973 putative phosphate acyltransferase; Provisional; Region: PRK05331 882096005974 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 882096005975 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 882096005976 Y-family of DNA polymerases; Region: PolY; cl12025 882096005977 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 882096005978 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 882096005979 generic binding surface II; other site 882096005980 ssDNA binding site; other site 882096005981 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 882096005982 ATP binding site [chemical binding]; other site 882096005983 putative Mg++ binding site [ion binding]; other site 882096005984 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 882096005985 nucleotide binding region [chemical binding]; other site 882096005986 ATP-binding site [chemical binding]; other site 882096005987 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 882096005988 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 882096005989 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 882096005990 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 882096005991 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 882096005992 putative L-serine binding site [chemical binding]; other site 882096005993 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 882096005994 DAK2 domain; Region: Dak2; pfam02734 882096005995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 882096005996 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 882096005997 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 882096005998 Thiamine pyrophosphokinase; Region: TPK; cd07995 882096005999 active site 882096006000 dimerization interface [polypeptide binding]; other site 882096006001 thiamine binding site [chemical binding]; other site 882096006002 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 882096006003 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 882096006004 substrate binding site [chemical binding]; other site 882096006005 hexamer interface [polypeptide binding]; other site 882096006006 metal binding site [ion binding]; metal-binding site 882096006007 GTPase RsgA; Reviewed; Region: PRK00098 882096006008 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 882096006009 RNA binding site [nucleotide binding]; other site 882096006010 homodimer interface [polypeptide binding]; other site 882096006011 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 882096006012 GTPase/Zn-binding domain interface [polypeptide binding]; other site 882096006013 GTP/Mg2+ binding site [chemical binding]; other site 882096006014 G4 box; other site 882096006015 G1 box; other site 882096006016 Switch I region; other site 882096006017 G2 box; other site 882096006018 G3 box; other site 882096006019 Switch II region; other site 882096006020 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882096006021 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 882096006022 active site 882096006023 ATP binding site [chemical binding]; other site 882096006024 substrate binding site [chemical binding]; other site 882096006025 activation loop (A-loop); other site 882096006026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 882096006027 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 882096006028 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 882096006029 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 882096006030 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 882096006031 Protein phosphatase 2C; Region: PP2C; pfam00481 882096006032 active site 882096006033 16S rRNA methyltransferase B; Provisional; Region: PRK14902 882096006034 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 882096006035 putative RNA binding site [nucleotide binding]; other site 882096006036 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 882096006037 S-adenosylmethionine binding site [chemical binding]; other site 882096006038 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 882096006039 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 882096006040 putative active site [active] 882096006041 substrate binding site [chemical binding]; other site 882096006042 putative cosubstrate binding site; other site 882096006043 catalytic site [active] 882096006044 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 882096006045 substrate binding site [chemical binding]; other site 882096006046 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 882096006047 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 882096006048 ATP binding site [chemical binding]; other site 882096006049 putative Mg++ binding site [ion binding]; other site 882096006050 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 882096006051 ATP-binding site [chemical binding]; other site 882096006052 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 882096006053 Flavoprotein; Region: Flavoprotein; pfam02441 882096006054 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 882096006055 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 882096006056 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 882096006057 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 882096006058 catalytic site [active] 882096006059 G-X2-G-X-G-K; other site 882096006060 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 882096006061 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 882096006062 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 882096006063 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 882096006064 Domain of unknown function (DUF814); Region: DUF814; pfam05670 882096006065 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 882096006066 putative NAD(P) binding site [chemical binding]; other site 882096006067 homodimer interface [polypeptide binding]; other site 882096006068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096006069 active site 882096006070 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 882096006071 active site 882096006072 dimer interface [polypeptide binding]; other site 882096006073 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 882096006074 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 882096006075 heterodimer interface [polypeptide binding]; other site 882096006076 active site 882096006077 FMN binding site [chemical binding]; other site 882096006078 homodimer interface [polypeptide binding]; other site 882096006079 substrate binding site [chemical binding]; other site 882096006080 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 882096006081 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 882096006082 FAD binding pocket [chemical binding]; other site 882096006083 FAD binding motif [chemical binding]; other site 882096006084 phosphate binding motif [ion binding]; other site 882096006085 beta-alpha-beta structure motif; other site 882096006086 NAD binding pocket [chemical binding]; other site 882096006087 Iron coordination center [ion binding]; other site 882096006088 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 882096006089 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882096006090 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 882096006091 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 882096006092 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882096006093 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882096006094 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 882096006095 IMP binding site; other site 882096006096 dimer interface [polypeptide binding]; other site 882096006097 interdomain contacts; other site 882096006098 partial ornithine binding site; other site 882096006099 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 882096006100 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 882096006101 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 882096006102 catalytic site [active] 882096006103 subunit interface [polypeptide binding]; other site 882096006104 dihydroorotase; Validated; Region: pyrC; PRK09357 882096006105 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 882096006106 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 882096006107 active site 882096006108 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 882096006109 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882096006110 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882096006111 uracil transporter; Provisional; Region: PRK10720 882096006112 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 882096006113 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096006114 active site 882096006115 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 882096006116 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 882096006117 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 882096006118 RNA binding surface [nucleotide binding]; other site 882096006119 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 882096006120 active site 882096006121 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 882096006122 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 882096006123 Sulfate transporter family; Region: Sulfate_transp; pfam00916 882096006124 multidrug efflux protein; Reviewed; Region: PRK01766 882096006125 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 882096006126 cation binding site [ion binding]; other site 882096006127 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 882096006128 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 882096006129 metal binding site [ion binding]; metal-binding site 882096006130 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 882096006131 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 882096006132 ABC-ATPase subunit interface; other site 882096006133 dimer interface [polypeptide binding]; other site 882096006134 putative PBP binding regions; other site 882096006135 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 882096006136 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 882096006137 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096006138 MarR family; Region: MarR; pfam01047 882096006139 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 882096006140 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 882096006141 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 882096006142 protein binding site [polypeptide binding]; other site 882096006143 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 882096006144 Catalytic dyad [active] 882096006145 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 882096006146 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 882096006147 metal-binding site [ion binding] 882096006148 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 882096006149 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 882096006150 metal-binding site [ion binding] 882096006151 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882096006152 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 882096006153 motif II; other site 882096006154 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 882096006155 putative homodimer interface [polypeptide binding]; other site 882096006156 putative homotetramer interface [polypeptide binding]; other site 882096006157 putative allosteric switch controlling residues; other site 882096006158 putative metal binding site [ion binding]; other site 882096006159 putative homodimer-homodimer interface [polypeptide binding]; other site 882096006160 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 882096006161 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 882096006162 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 882096006163 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 882096006164 hypothetical protein; Provisional; Region: PRK13672 882096006165 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882096006166 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096006167 methionine sulfoxide reductase B; Provisional; Region: PRK00222 882096006168 SelR domain; Region: SelR; pfam01641 882096006169 methionine sulfoxide reductase A; Provisional; Region: PRK14054 882096006170 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 882096006171 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 882096006172 active site 882096006173 catalytic triad [active] 882096006174 oxyanion hole [active] 882096006175 EDD domain protein, DegV family; Region: DegV; TIGR00762 882096006176 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 882096006177 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 882096006178 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 882096006179 HTH domain; Region: HTH_11; pfam08279 882096006180 FOG: CBS domain [General function prediction only]; Region: COG0517 882096006181 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 882096006182 PEP synthetase regulatory protein; Provisional; Region: PRK05339 882096006183 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882096006184 pyruvate phosphate dikinase; Provisional; Region: PRK09279 882096006185 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882096006186 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882096006187 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 882096006188 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096006189 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 882096006190 Predicted membrane protein [Function unknown]; Region: COG4129 882096006191 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 882096006192 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 882096006193 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 882096006194 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 882096006195 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 882096006196 active site 882096006197 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 882096006198 substrate binding site [chemical binding]; other site 882096006199 metal binding site [ion binding]; metal-binding site 882096006200 Methyltransferase domain; Region: Methyltransf_23; pfam13489 882096006201 Methyltransferase domain; Region: Methyltransf_18; pfam12847 882096006202 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 882096006203 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 882096006204 folate binding site [chemical binding]; other site 882096006205 NADP+ binding site [chemical binding]; other site 882096006206 thymidylate synthase; Region: thym_sym; TIGR03284 882096006207 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 882096006208 dimerization interface [polypeptide binding]; other site 882096006209 active site 882096006210 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 882096006211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096006212 Walker A/P-loop; other site 882096006213 ATP binding site [chemical binding]; other site 882096006214 Q-loop/lid; other site 882096006215 ABC transporter signature motif; other site 882096006216 Walker B; other site 882096006217 D-loop; other site 882096006218 H-loop/switch region; other site 882096006219 ABC transporter; Region: ABC_tran_2; pfam12848 882096006220 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096006221 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 882096006222 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 882096006223 Potassium binding sites [ion binding]; other site 882096006224 Cesium cation binding sites [ion binding]; other site 882096006225 manganese transport transcriptional regulator; Provisional; Region: PRK03902 882096006226 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 882096006227 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 882096006228 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 882096006229 DNA-binding site [nucleotide binding]; DNA binding site 882096006230 RNA-binding motif; other site 882096006231 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 882096006232 RNA/DNA hybrid binding site [nucleotide binding]; other site 882096006233 active site 882096006234 5'-3' exonuclease; Region: 53EXOc; smart00475 882096006235 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 882096006236 active site 882096006237 metal binding site 1 [ion binding]; metal-binding site 882096006238 putative 5' ssDNA interaction site; other site 882096006239 metal binding site 3; metal-binding site 882096006240 metal binding site 2 [ion binding]; metal-binding site 882096006241 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 882096006242 putative DNA binding site [nucleotide binding]; other site 882096006243 putative metal binding site [ion binding]; other site 882096006244 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 882096006245 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 882096006246 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 882096006247 putative active site [active] 882096006248 xanthine permease; Region: pbuX; TIGR03173 882096006249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096006250 active site 882096006251 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 882096006252 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 882096006253 active site 882096006254 Zn binding site [ion binding]; other site 882096006255 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 882096006256 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 882096006257 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 882096006258 cell division protein GpsB; Provisional; Region: PRK14127 882096006259 DivIVA domain; Region: DivI1A_domain; TIGR03544 882096006260 Interactor of ZYG-11; Region: ZYG-11_interact; pfam05884 882096006261 hypothetical protein; Provisional; Region: PRK13660 882096006262 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 882096006263 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 882096006264 Transglycosylase; Region: Transgly; pfam00912 882096006265 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 882096006266 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882096006267 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 882096006268 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882096006269 minor groove reading motif; other site 882096006270 helix-hairpin-helix signature motif; other site 882096006271 substrate binding pocket [chemical binding]; other site 882096006272 active site 882096006273 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 882096006274 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 882096006275 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 882096006276 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 882096006277 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 882096006278 putative dimer interface [polypeptide binding]; other site 882096006279 putative anticodon binding site; other site 882096006280 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 882096006281 homodimer interface [polypeptide binding]; other site 882096006282 motif 1; other site 882096006283 motif 2; other site 882096006284 active site 882096006285 motif 3; other site 882096006286 aspartate aminotransferase; Provisional; Region: PRK05764 882096006287 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 882096006288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096006289 homodimer interface [polypeptide binding]; other site 882096006290 catalytic residue [active] 882096006291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 882096006292 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 882096006293 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 882096006294 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 882096006295 active site 882096006296 catalytic site [active] 882096006297 substrate binding site [chemical binding]; other site 882096006298 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 882096006299 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 882096006300 putative Mg++ binding site [ion binding]; other site 882096006301 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 882096006302 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 882096006303 tetramerization interface [polypeptide binding]; other site 882096006304 active site 882096006305 pantoate--beta-alanine ligase; Region: panC; TIGR00018 882096006306 Pantoate-beta-alanine ligase; Region: PanC; cd00560 882096006307 active site 882096006308 ATP-binding site [chemical binding]; other site 882096006309 pantoate-binding site; other site 882096006310 HXXH motif; other site 882096006311 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 882096006312 active site 882096006313 oligomerization interface [polypeptide binding]; other site 882096006314 metal binding site [ion binding]; metal-binding site 882096006315 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 882096006316 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 882096006317 catalytic residues [active] 882096006318 Biotin operon repressor [Transcription]; Region: BirA; COG1654 882096006319 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 882096006320 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 882096006321 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 882096006322 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 882096006323 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 882096006324 active site 882096006325 NTP binding site [chemical binding]; other site 882096006326 metal binding triad [ion binding]; metal-binding site 882096006327 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 882096006328 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 882096006329 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 882096006330 active site 882096006331 dimer interfaces [polypeptide binding]; other site 882096006332 catalytic residues [active] 882096006333 dihydrodipicolinate reductase; Provisional; Region: PRK00048 882096006334 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 882096006335 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 882096006336 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 882096006337 homodimer interface [polypeptide binding]; other site 882096006338 metal binding site [ion binding]; metal-binding site 882096006339 Uncharacterized conserved protein [Function unknown]; Region: COG1284 882096006340 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882096006341 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882096006342 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882096006343 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 882096006344 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 882096006345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882096006346 metal binding site [ion binding]; metal-binding site 882096006347 active site 882096006348 I-site; other site 882096006349 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 882096006350 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 882096006351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882096006352 metal binding site [ion binding]; metal-binding site 882096006353 active site 882096006354 I-site; other site 882096006355 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 882096006356 malate dehydrogenase; Provisional; Region: PRK13529 882096006357 Malic enzyme, N-terminal domain; Region: malic; pfam00390 882096006358 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 882096006359 NAD(P) binding pocket [chemical binding]; other site 882096006360 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 882096006361 Beta-lactamase; Region: Beta-lactamase; pfam00144 882096006362 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 882096006363 Pyruvate formate lyase 1; Region: PFL1; cd01678 882096006364 coenzyme A binding site [chemical binding]; other site 882096006365 active site 882096006366 catalytic residues [active] 882096006367 glycine loop; other site 882096006368 HI0933-like protein; Region: HI0933_like; pfam03486 882096006369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 882096006370 Predicted Zn-dependent protease [General function prediction only]; Region: COG2738 882096006371 Predicted membrane protein [Function unknown]; Region: COG4347 882096006372 hypothetical protein; Provisional; Region: PRK03636 882096006373 UPF0302 domain; Region: UPF0302; pfam08864 882096006374 IDEAL domain; Region: IDEAL; pfam08858 882096006375 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 882096006376 binding surface 882096006377 TPR motif; other site 882096006378 TPR repeat; Region: TPR_11; pfam13414 882096006379 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 882096006380 binding surface 882096006381 TPR motif; other site 882096006382 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 882096006383 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 882096006384 hinge; other site 882096006385 active site 882096006386 prephenate dehydrogenase; Validated; Region: PRK06545 882096006387 prephenate dehydrogenase; Validated; Region: PRK08507 882096006388 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 882096006389 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 882096006390 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 882096006391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096006392 homodimer interface [polypeptide binding]; other site 882096006393 catalytic residue [active] 882096006394 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 882096006395 homotrimer interaction site [polypeptide binding]; other site 882096006396 active site 882096006397 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 882096006398 active site 882096006399 dimer interface [polypeptide binding]; other site 882096006400 metal binding site [ion binding]; metal-binding site 882096006401 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 882096006402 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 882096006403 Tetramer interface [polypeptide binding]; other site 882096006404 active site 882096006405 FMN-binding site [chemical binding]; other site 882096006406 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 882096006407 active site 882096006408 multimer interface [polypeptide binding]; other site 882096006409 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 882096006410 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 882096006411 substrate binding pocket [chemical binding]; other site 882096006412 chain length determination region; other site 882096006413 substrate-Mg2+ binding site; other site 882096006414 catalytic residues [active] 882096006415 aspartate-rich region 1; other site 882096006416 active site lid residues [active] 882096006417 aspartate-rich region 2; other site 882096006418 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 882096006419 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 882096006420 S-adenosylmethionine binding site [chemical binding]; other site 882096006421 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 882096006422 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 882096006423 homodecamer interface [polypeptide binding]; other site 882096006424 GTP cyclohydrolase I; Provisional; Region: PLN03044 882096006425 active site 882096006426 putative catalytic site residues [active] 882096006427 zinc binding site [ion binding]; other site 882096006428 GTP-CH-I/GFRP interaction surface; other site 882096006429 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 882096006430 IHF dimer interface [polypeptide binding]; other site 882096006431 IHF - DNA interface [nucleotide binding]; other site 882096006432 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 882096006433 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 882096006434 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 882096006435 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 882096006436 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 882096006437 GTP-binding protein Der; Reviewed; Region: PRK00093 882096006438 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 882096006439 G1 box; other site 882096006440 GTP/Mg2+ binding site [chemical binding]; other site 882096006441 Switch I region; other site 882096006442 G2 box; other site 882096006443 Switch II region; other site 882096006444 G3 box; other site 882096006445 G4 box; other site 882096006446 G5 box; other site 882096006447 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 882096006448 G1 box; other site 882096006449 GTP/Mg2+ binding site [chemical binding]; other site 882096006450 Switch I region; other site 882096006451 G2 box; other site 882096006452 G3 box; other site 882096006453 Switch II region; other site 882096006454 G4 box; other site 882096006455 G5 box; other site 882096006456 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 882096006457 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 882096006458 RNA binding site [nucleotide binding]; other site 882096006459 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 882096006460 RNA binding site [nucleotide binding]; other site 882096006461 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 882096006462 RNA binding site [nucleotide binding]; other site 882096006463 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 882096006464 RNA binding site [nucleotide binding]; other site 882096006465 cytidylate kinase; Provisional; Region: cmk; PRK00023 882096006466 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 882096006467 CMP-binding site; other site 882096006468 The sites determining sugar specificity; other site 882096006469 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 882096006470 active site 882096006471 homotetramer interface [polypeptide binding]; other site 882096006472 homodimer interface [polypeptide binding]; other site 882096006473 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096006474 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 882096006475 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 882096006476 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 882096006477 ATP binding site [chemical binding]; other site 882096006478 putative Mg++ binding site [ion binding]; other site 882096006479 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 882096006480 nucleotide binding region [chemical binding]; other site 882096006481 ATP-binding site [chemical binding]; other site 882096006482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 882096006483 Predicted membrane protein [Function unknown]; Region: COG3601 882096006484 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 882096006485 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 882096006486 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 882096006487 dimerization interface [polypeptide binding]; other site 882096006488 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 882096006489 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 882096006490 dimer interface [polypeptide binding]; other site 882096006491 phosphorylation site [posttranslational modification] 882096006492 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 882096006493 ATP binding site [chemical binding]; other site 882096006494 Mg2+ binding site [ion binding]; other site 882096006495 G-X-G motif; other site 882096006496 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096006497 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 882096006498 active site 882096006499 phosphorylation site [posttranslational modification] 882096006500 intermolecular recognition site; other site 882096006501 dimerization interface [polypeptide binding]; other site 882096006502 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 882096006503 DNA binding site [nucleotide binding] 882096006504 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 882096006505 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 882096006506 RNA binding surface [nucleotide binding]; other site 882096006507 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 882096006508 active site 882096006509 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 882096006510 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 882096006511 diaminopimelate decarboxylase; Region: lysA; TIGR01048 882096006512 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 882096006513 active site 882096006514 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882096006515 substrate binding site [chemical binding]; other site 882096006516 catalytic residues [active] 882096006517 dimer interface [polypeptide binding]; other site 882096006518 purine nucleoside phosphorylase; Provisional; Region: PRK08202 882096006519 phosphopentomutase; Provisional; Region: PRK05362 882096006520 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 882096006521 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 882096006522 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 882096006523 active site 882096006524 Int/Topo IB signature motif; other site 882096006525 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 882096006526 metal binding site 2 [ion binding]; metal-binding site 882096006527 putative DNA binding helix; other site 882096006528 metal binding site 1 [ion binding]; metal-binding site 882096006529 dimer interface [polypeptide binding]; other site 882096006530 structural Zn2+ binding site [ion binding]; other site 882096006531 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 882096006532 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 882096006533 ABC-ATPase subunit interface; other site 882096006534 dimer interface [polypeptide binding]; other site 882096006535 putative PBP binding regions; other site 882096006536 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 882096006537 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 882096006538 ABC-ATPase subunit interface; other site 882096006539 dimer interface [polypeptide binding]; other site 882096006540 putative PBP binding regions; other site 882096006541 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 882096006542 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 882096006543 putative ligand binding residues [chemical binding]; other site 882096006544 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 882096006545 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 882096006546 Walker A/P-loop; other site 882096006547 ATP binding site [chemical binding]; other site 882096006548 Q-loop/lid; other site 882096006549 ABC transporter signature motif; other site 882096006550 Walker B; other site 882096006551 D-loop; other site 882096006552 H-loop/switch region; other site 882096006553 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 882096006554 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 882096006555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096006556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096006557 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 882096006558 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 882096006559 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882096006560 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882096006561 Walker A/P-loop; other site 882096006562 ATP binding site [chemical binding]; other site 882096006563 Q-loop/lid; other site 882096006564 ABC transporter signature motif; other site 882096006565 Walker B; other site 882096006566 D-loop; other site 882096006567 H-loop/switch region; other site 882096006568 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 882096006569 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 882096006570 dimer interface [polypeptide binding]; other site 882096006571 ADP-ribose binding site [chemical binding]; other site 882096006572 active site 882096006573 nudix motif; other site 882096006574 metal binding site [ion binding]; metal-binding site 882096006575 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]; Region: XpaC; COG4915 882096006576 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 882096006577 Creatinine amidohydrolase; Region: Creatininase; pfam02633 882096006578 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 882096006579 intersubunit interface [polypeptide binding]; other site 882096006580 catalytic residue [active] 882096006581 Class I aldolases; Region: Aldolase_Class_I; cl17187 882096006582 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 882096006583 active site 882096006584 substrate binding pocket [chemical binding]; other site 882096006585 homodimer interaction site [polypeptide binding]; other site 882096006586 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 882096006587 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 882096006588 active site 882096006589 P-loop; other site 882096006590 phosphorylation site [posttranslational modification] 882096006591 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 882096006592 active site 882096006593 phosphorylation site [posttranslational modification] 882096006594 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096006595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096006596 DNA-binding site [nucleotide binding]; DNA binding site 882096006597 UTRA domain; Region: UTRA; pfam07702 882096006598 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 882096006599 active site 882096006600 DNA polymerase IV; Validated; Region: PRK02406 882096006601 DNA binding site [nucleotide binding] 882096006602 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 882096006603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882096006604 NAD(P) binding site [chemical binding]; other site 882096006605 active site 882096006606 ribonuclease Z; Region: RNase_Z; TIGR02651 882096006607 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 882096006608 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 882096006609 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 882096006610 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 882096006611 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 882096006612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096006613 Coenzyme A binding pocket [chemical binding]; other site 882096006614 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 882096006615 6-phosphogluconate dehydratase; Region: edd; TIGR01196 882096006616 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 882096006617 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882096006618 PYR/PP interface [polypeptide binding]; other site 882096006619 dimer interface [polypeptide binding]; other site 882096006620 TPP binding site [chemical binding]; other site 882096006621 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882096006622 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 882096006623 TPP-binding site [chemical binding]; other site 882096006624 dimer interface [polypeptide binding]; other site 882096006625 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 882096006626 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 882096006627 putative valine binding site [chemical binding]; other site 882096006628 dimer interface [polypeptide binding]; other site 882096006629 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 882096006630 ketol-acid reductoisomerase; Provisional; Region: PRK05479 882096006631 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 882096006632 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 882096006633 2-isopropylmalate synthase; Validated; Region: PRK00915 882096006634 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 882096006635 active site 882096006636 catalytic residues [active] 882096006637 metal binding site [ion binding]; metal-binding site 882096006638 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 882096006639 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 882096006640 tartrate dehydrogenase; Region: TTC; TIGR02089 882096006641 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 882096006642 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 882096006643 substrate binding site [chemical binding]; other site 882096006644 ligand binding site [chemical binding]; other site 882096006645 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 882096006646 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 882096006647 substrate binding site [chemical binding]; other site 882096006648 threonine dehydratase; Validated; Region: PRK08639 882096006649 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 882096006650 tetramer interface [polypeptide binding]; other site 882096006651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096006652 catalytic residue [active] 882096006653 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 882096006654 alpha-acetolactate decarboxylase; Region: acetolac_decarb; TIGR01252 882096006655 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 882096006656 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 882096006657 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 882096006658 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 882096006659 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096006660 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096006661 DNA binding site [nucleotide binding] 882096006662 domain linker motif; other site 882096006663 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 882096006664 dimerization interface [polypeptide binding]; other site 882096006665 ligand binding site [chemical binding]; other site 882096006666 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 882096006667 intersubunit interface [polypeptide binding]; other site 882096006668 active site 882096006669 catalytic residue [active] 882096006670 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 882096006671 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 882096006672 DNA binding residues [nucleotide binding] 882096006673 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 882096006674 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 882096006675 active pocket/dimerization site; other site 882096006676 active site 882096006677 phosphorylation site [posttranslational modification] 882096006678 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882096006679 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 882096006680 putative active site [active] 882096006681 SIS domain; Region: SIS; pfam01380 882096006682 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882096006683 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 882096006684 dimer interface [polypeptide binding]; other site 882096006685 active site 882096006686 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 882096006687 dimer interface [polypeptide binding]; other site 882096006688 active site 882096006689 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 882096006690 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 882096006691 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 882096006692 active site 882096006693 phosphorylation site [posttranslational modification] 882096006694 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096006695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096006696 DNA-binding site [nucleotide binding]; DNA binding site 882096006697 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 882096006698 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096006699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096006700 DNA-binding site [nucleotide binding]; DNA binding site 882096006701 UTRA domain; Region: UTRA; pfam07702 882096006702 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 882096006703 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096006704 active site 882096006705 catalytic tetrad [active] 882096006706 acetolactate synthase; Reviewed; Region: PRK08617 882096006707 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882096006708 PYR/PP interface [polypeptide binding]; other site 882096006709 dimer interface [polypeptide binding]; other site 882096006710 TPP binding site [chemical binding]; other site 882096006711 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882096006712 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 882096006713 TPP-binding site [chemical binding]; other site 882096006714 dimer interface [polypeptide binding]; other site 882096006715 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 882096006716 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 882096006717 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 882096006718 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882096006719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096006720 dimer interface [polypeptide binding]; other site 882096006721 conserved gate region; other site 882096006722 ABC-ATPase subunit interface; other site 882096006723 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 882096006724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096006725 dimer interface [polypeptide binding]; other site 882096006726 conserved gate region; other site 882096006727 ABC-ATPase subunit interface; other site 882096006728 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 882096006729 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 882096006730 active site 882096006731 phosphorylation site [posttranslational modification] 882096006732 intermolecular recognition site; other site 882096006733 dimerization interface [polypeptide binding]; other site 882096006734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096006735 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 882096006736 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 882096006737 dimerization interface [polypeptide binding]; other site 882096006738 Histidine kinase; Region: His_kinase; pfam06580 882096006739 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 882096006740 ATP binding site [chemical binding]; other site 882096006741 Mg2+ binding site [ion binding]; other site 882096006742 G-X-G motif; other site 882096006743 Predicted integral membrane protein [Function unknown]; Region: COG5578 882096006744 Uncharacterized conserved protein [Function unknown]; Region: COG3538 882096006745 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 882096006746 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 882096006747 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 882096006748 active site 882096006749 metal binding site [ion binding]; metal-binding site 882096006750 homodimer interface [polypeptide binding]; other site 882096006751 catalytic site [active] 882096006752 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 882096006753 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 882096006754 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 882096006755 active site 882096006756 catalytic site [active] 882096006757 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 882096006758 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 882096006759 DNA-binding site [nucleotide binding]; DNA binding site 882096006760 RNA-binding motif; other site 882096006761 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 882096006762 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 882096006763 active site 882096006764 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 882096006765 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 882096006766 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 882096006767 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 882096006768 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 882096006769 HIGH motif; other site 882096006770 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 882096006771 active site 882096006772 KMSKS motif; other site 882096006773 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 882096006774 tRNA binding surface [nucleotide binding]; other site 882096006775 anticodon binding site; other site 882096006776 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 882096006777 DivIVA protein; Region: DivIVA; pfam05103 882096006778 DivIVA domain; Region: DivI1A_domain; TIGR03544 882096006779 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 882096006780 HTH domain; Region: HTH_11; pfam08279 882096006781 3H domain; Region: 3H; pfam02829 882096006782 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 882096006783 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 882096006784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882096006785 catalytic residue [active] 882096006786 L-aspartate oxidase; Provisional; Region: PRK08071 882096006787 L-aspartate oxidase; Provisional; Region: PRK06175 882096006788 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 882096006789 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 882096006790 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 882096006791 dimerization interface [polypeptide binding]; other site 882096006792 active site 882096006793 quinolinate synthetase; Provisional; Region: PRK09375 882096006794 Leucine rich repeat; Region: LRR_8; pfam13855 882096006795 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096006796 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096006797 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 882096006798 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096006799 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096006800 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 882096006801 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 882096006802 RNA binding surface [nucleotide binding]; other site 882096006803 YGGT family; Region: YGGT; pfam02325 882096006804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 882096006805 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 882096006806 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882096006807 catalytic residue [active] 882096006808 cell division protein FtsZ; Validated; Region: PRK09330 882096006809 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 882096006810 nucleotide binding site [chemical binding]; other site 882096006811 SulA interaction site; other site 882096006812 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 882096006813 Cell division protein FtsA; Region: FtsA; smart00842 882096006814 Cell division protein FtsA; Region: FtsA; pfam14450 882096006815 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 882096006816 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 882096006817 Cell division protein FtsQ; Region: FtsQ; pfam03799 882096006818 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 882096006819 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 882096006820 active site 882096006821 homodimer interface [polypeptide binding]; other site 882096006822 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 882096006823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882096006824 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882096006825 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 882096006826 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 882096006827 Mg++ binding site [ion binding]; other site 882096006828 putative catalytic motif [active] 882096006829 putative substrate binding site [chemical binding]; other site 882096006830 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 882096006831 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882096006832 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882096006833 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882096006834 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 882096006835 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 882096006836 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882096006837 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 882096006838 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 882096006839 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 882096006840 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 882096006841 MraW methylase family; Region: Methyltransf_5; pfam01795 882096006842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 882096006843 MraZ protein; Region: MraZ; pfam02381 882096006844 MraZ protein; Region: MraZ; pfam02381 882096006845 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096006846 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 882096006847 putative substrate translocation pore; other site 882096006848 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 882096006849 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 882096006850 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 882096006851 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 882096006852 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 882096006853 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 882096006854 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 882096006855 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 882096006856 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 882096006857 hypothetical protein; Provisional; Region: PRK13670 882096006858 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 882096006859 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 882096006860 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 882096006861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096006862 Walker A/P-loop; other site 882096006863 ATP binding site [chemical binding]; other site 882096006864 Q-loop/lid; other site 882096006865 ABC transporter signature motif; other site 882096006866 Walker B; other site 882096006867 D-loop; other site 882096006868 H-loop/switch region; other site 882096006869 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 882096006870 PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ...; Region: PDZ_LON_protease; cd00986 882096006871 protein binding site [polypeptide binding]; other site 882096006872 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 882096006873 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 882096006874 active site 882096006875 (T/H)XGH motif; other site 882096006876 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 882096006877 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 882096006878 S-adenosylmethionine binding site [chemical binding]; other site 882096006879 hypothetical protein; Provisional; Region: PRK02886 882096006880 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 882096006881 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 882096006882 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 882096006883 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 882096006884 UbiA prenyltransferase family; Region: UbiA; pfam01040 882096006885 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 882096006886 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 882096006887 Ion transport protein; Region: Ion_trans; pfam00520 882096006888 Ion channel; Region: Ion_trans_2; pfam07885 882096006889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 882096006890 MOSC domain; Region: MOSC; pfam03473 882096006891 3-alpha domain; Region: 3-alpha; pfam03475 882096006892 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 882096006893 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 882096006894 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 882096006895 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13953 882096006896 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 882096006897 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 882096006898 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 882096006899 active site 882096006900 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 882096006901 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 882096006902 ring oligomerisation interface [polypeptide binding]; other site 882096006903 ATP/Mg binding site [chemical binding]; other site 882096006904 stacking interactions; other site 882096006905 hinge regions; other site 882096006906 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 882096006907 oligomerisation interface [polypeptide binding]; other site 882096006908 mobile loop; other site 882096006909 roof hairpin; other site 882096006910 CAAX protease self-immunity; Region: Abi; pfam02517 882096006911 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 882096006912 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 882096006913 CoA binding domain; Region: CoA_binding; pfam02629 882096006914 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 882096006915 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096006916 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096006917 ABC transporter; Region: ABC_tran_2; pfam12848 882096006918 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096006919 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 882096006920 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 882096006921 UGMP family protein; Validated; Region: PRK09604 882096006922 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 882096006923 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 882096006924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096006925 Coenzyme A binding pocket [chemical binding]; other site 882096006926 Glycoprotease family; Region: Peptidase_M22; pfam00814 882096006927 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 882096006928 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 882096006929 camphor resistance protein CrcB; Provisional; Region: PRK14214 882096006930 camphor resistance protein CrcB; Provisional; Region: PRK14231 882096006931 Uncharacterized conserved protein [Function unknown]; Region: COG4832 882096006932 Phosphotransferase enzyme family; Region: APH; pfam01636 882096006933 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 882096006934 active site 882096006935 substrate binding site [chemical binding]; other site 882096006936 ATP binding site [chemical binding]; other site 882096006937 Cna protein B-type domain; Region: Cna_B; pfam05738 882096006938 Cna protein B-type domain; Region: Cna_B; pfam05738 882096006939 Cna protein B-type domain; Region: Cna_B; pfam05738 882096006940 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096006941 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 882096006942 non-specific DNA binding site [nucleotide binding]; other site 882096006943 salt bridge; other site 882096006944 sequence-specific DNA binding site [nucleotide binding]; other site 882096006945 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 882096006946 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 882096006947 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096006948 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096006949 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 882096006950 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 882096006951 substrate binding pocket [chemical binding]; other site 882096006952 argininosuccinate synthase; Provisional; Region: PRK13820 882096006953 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 882096006954 ANP binding site [chemical binding]; other site 882096006955 Substrate Binding Site II [chemical binding]; other site 882096006956 Substrate Binding Site I [chemical binding]; other site 882096006957 argininosuccinate lyase; Provisional; Region: PRK00855 882096006958 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 882096006959 active sites [active] 882096006960 tetramer interface [polypeptide binding]; other site 882096006961 BCCT family transporter; Region: BCCT; pfam02028 882096006962 hypothetical protein; Provisional; Region: PRK06357 882096006963 active site 882096006964 intersubunit interface [polypeptide binding]; other site 882096006965 Zn2+ binding site [ion binding]; other site 882096006966 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 882096006967 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 882096006968 putative substrate binding site [chemical binding]; other site 882096006969 putative ATP binding site [chemical binding]; other site 882096006970 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 882096006971 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 882096006972 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 882096006973 active site 882096006974 P-loop; other site 882096006975 phosphorylation site [posttranslational modification] 882096006976 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 882096006977 active site 882096006978 phosphorylation site [posttranslational modification] 882096006979 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096006980 PRD domain; Region: PRD; pfam00874 882096006981 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096006982 active site 882096006983 P-loop; other site 882096006984 phosphorylation site [posttranslational modification] 882096006985 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 882096006986 active site 882096006987 phosphorylation site [posttranslational modification] 882096006988 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 882096006989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096006990 DNA-binding site [nucleotide binding]; DNA binding site 882096006991 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 882096006992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096006993 homodimer interface [polypeptide binding]; other site 882096006994 catalytic residue [active] 882096006995 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 882096006996 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 882096006997 active site 882096006998 multimer interface [polypeptide binding]; other site 882096006999 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 882096007000 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 882096007001 predicted active site [active] 882096007002 catalytic triad [active] 882096007003 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 882096007004 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 882096007005 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 882096007006 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 882096007007 G1 box; other site 882096007008 GTP/Mg2+ binding site [chemical binding]; other site 882096007009 Switch I region; other site 882096007010 G2 box; other site 882096007011 G3 box; other site 882096007012 Switch II region; other site 882096007013 G4 box; other site 882096007014 G5 box; other site 882096007015 Nucleoside recognition; Region: Gate; pfam07670 882096007016 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 882096007017 Nucleoside recognition; Region: Gate; pfam07670 882096007018 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 882096007019 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 882096007020 putative active site [active] 882096007021 putative metal binding site [ion binding]; other site 882096007022 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882096007023 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 882096007024 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 882096007025 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 882096007026 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 882096007027 active site 882096007028 dimer interface [polypeptide binding]; other site 882096007029 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 882096007030 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 882096007031 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 882096007032 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 882096007033 dimer interface [polypeptide binding]; other site 882096007034 FMN binding site [chemical binding]; other site 882096007035 NADPH bind site [chemical binding]; other site 882096007036 Helix-turn-helix domain; Region: HTH_17; pfam12728 882096007037 putative heme peroxidase; Provisional; Region: PRK12276 882096007038 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096007039 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096007040 Walker A/P-loop; other site 882096007041 ATP binding site [chemical binding]; other site 882096007042 Q-loop/lid; other site 882096007043 ABC transporter signature motif; other site 882096007044 Walker B; other site 882096007045 D-loop; other site 882096007046 H-loop/switch region; other site 882096007047 FtsX-like permease family; Region: FtsX; pfam02687 882096007048 FtsX-like permease family; Region: FtsX; pfam02687 882096007049 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096007050 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 882096007051 Coenzyme A binding pocket [chemical binding]; other site 882096007052 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 882096007053 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 882096007054 active site 882096007055 substrate binding site [chemical binding]; other site 882096007056 metal binding site [ion binding]; metal-binding site 882096007057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 882096007058 YbbR-like protein; Region: YbbR; pfam07949 882096007059 YbbR-like protein; Region: YbbR; pfam07949 882096007060 YbbR-like protein; Region: YbbR; pfam07949 882096007061 Uncharacterized conserved protein [Function unknown]; Region: COG1624 882096007062 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 882096007063 maltose phosphorylase; Provisional; Region: PRK13807 882096007064 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 882096007065 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 882096007066 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 882096007067 Predicted integral membrane protein [Function unknown]; Region: COG5521 882096007068 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882096007069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007070 dimer interface [polypeptide binding]; other site 882096007071 conserved gate region; other site 882096007072 putative PBP binding loops; other site 882096007073 ABC-ATPase subunit interface; other site 882096007074 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007075 dimer interface [polypeptide binding]; other site 882096007076 conserved gate region; other site 882096007077 putative PBP binding loops; other site 882096007078 ABC-ATPase subunit interface; other site 882096007079 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 882096007080 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 882096007081 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 882096007082 homodimer interface [polypeptide binding]; other site 882096007083 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 882096007084 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 882096007085 active site 882096007086 homodimer interface [polypeptide binding]; other site 882096007087 catalytic site [active] 882096007088 CAAX protease self-immunity; Region: Abi; cl00558 882096007089 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096007090 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096007091 DNA binding site [nucleotide binding] 882096007092 domain linker motif; other site 882096007093 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 882096007094 ligand binding site [chemical binding]; other site 882096007095 dimerization interface [polypeptide binding]; other site 882096007096 Amino acid permease; Region: AA_permease_2; pfam13520 882096007097 K+ potassium transporter; Region: K_trans; cl15781 882096007098 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096007099 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096007100 ligand binding site [chemical binding]; other site 882096007101 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096007102 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 882096007103 ligand binding site [chemical binding]; other site 882096007104 flexible hinge region; other site 882096007105 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882096007106 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 882096007107 intersubunit interface [polypeptide binding]; other site 882096007108 active site 882096007109 zinc binding site [ion binding]; other site 882096007110 Na+ binding site [ion binding]; other site 882096007111 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 882096007112 intersubunit interface [polypeptide binding]; other site 882096007113 active site 882096007114 zinc binding site [ion binding]; other site 882096007115 Na+ binding site [ion binding]; other site 882096007116 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 882096007117 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 882096007118 active site 882096007119 P-loop; other site 882096007120 phosphorylation site [posttranslational modification] 882096007121 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 882096007122 active site 882096007123 phosphorylation site [posttranslational modification] 882096007124 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096007125 HTH domain; Region: HTH_11; pfam08279 882096007126 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096007127 PRD domain; Region: PRD; pfam00874 882096007128 PRD domain; Region: PRD; pfam00874 882096007129 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096007130 active site 882096007131 P-loop; other site 882096007132 phosphorylation site [posttranslational modification] 882096007133 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 882096007134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096007135 Walker A/P-loop; other site 882096007136 ATP binding site [chemical binding]; other site 882096007137 Q-loop/lid; other site 882096007138 ABC transporter signature motif; other site 882096007139 Walker B; other site 882096007140 D-loop; other site 882096007141 H-loop/switch region; other site 882096007142 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 882096007143 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 882096007144 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 882096007145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096007146 Coenzyme A binding pocket [chemical binding]; other site 882096007147 Transcriptional regulators [Transcription]; Region: GntR; COG1802 882096007148 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 882096007149 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 882096007150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882096007151 putative transposase OrfB; Reviewed; Region: PHA02517 882096007152 HTH-like domain; Region: HTH_21; pfam13276 882096007153 Integrase core domain; Region: rve; pfam00665 882096007154 Integrase core domain; Region: rve_3; cl15866 882096007155 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882096007156 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096007157 DNA-binding site [nucleotide binding]; DNA binding site 882096007158 UTRA domain; Region: UTRA; pfam07702 882096007159 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 882096007160 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 882096007161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096007162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096007163 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 882096007164 putative dimerization interface [polypeptide binding]; other site 882096007165 Predicted membrane protein [Function unknown]; Region: COG2855 882096007166 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 882096007167 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 882096007168 putative metal binding site [ion binding]; other site 882096007169 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 882096007170 homodimer interface [polypeptide binding]; other site 882096007171 chemical substrate binding site [chemical binding]; other site 882096007172 oligomer interface [polypeptide binding]; other site 882096007173 metal binding site [ion binding]; metal-binding site 882096007174 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 882096007175 catalytic residues [active] 882096007176 flavodoxin; Provisional; Region: PRK09271 882096007177 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 882096007178 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 882096007179 dimer interface [polypeptide binding]; other site 882096007180 putative radical transfer pathway; other site 882096007181 diiron center [ion binding]; other site 882096007182 tyrosyl radical; other site 882096007183 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 882096007184 Class I ribonucleotide reductase; Region: RNR_I; cd01679 882096007185 active site 882096007186 dimer interface [polypeptide binding]; other site 882096007187 catalytic residues [active] 882096007188 effector binding site; other site 882096007189 R2 peptide binding site; other site 882096007190 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 882096007191 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 882096007192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 882096007193 CsbD-like; Region: CsbD; cl17424 882096007194 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882096007195 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096007196 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 882096007197 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 882096007198 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 882096007199 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 882096007200 conserved cys residue [active] 882096007201 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 882096007202 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882096007203 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096007204 Cupin domain; Region: Cupin_2; cl17218 882096007205 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882096007206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096007207 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096007208 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 882096007209 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096007210 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096007211 ligand binding site [chemical binding]; other site 882096007212 flexible hinge region; other site 882096007213 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 882096007214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882096007215 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096007216 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 882096007217 dimer interface [polypeptide binding]; other site 882096007218 active site 882096007219 metal binding site [ion binding]; metal-binding site 882096007220 glutathione binding site [chemical binding]; other site 882096007221 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 882096007222 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 882096007223 FMN binding site [chemical binding]; other site 882096007224 substrate binding site [chemical binding]; other site 882096007225 putative catalytic residue [active] 882096007226 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 882096007227 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 882096007228 Coenzyme A transferase; Region: CoA_trans; smart00882 882096007229 Coenzyme A transferase; Region: CoA_trans; cl17247 882096007230 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 882096007231 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882096007232 Walker A motif; other site 882096007233 ATP binding site [chemical binding]; other site 882096007234 Walker B motif; other site 882096007235 arginine finger; other site 882096007236 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882096007237 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 882096007238 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 882096007239 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882096007240 metal binding site [ion binding]; metal-binding site 882096007241 active site 882096007242 I-site; other site 882096007243 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 882096007244 classical (c) SDRs; Region: SDR_c; cd05233 882096007245 NAD(P) binding site [chemical binding]; other site 882096007246 active site 882096007247 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096007248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096007249 Tic20-like protein; Region: Tic20; pfam09685 882096007250 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 882096007251 Cna protein B-type domain; Region: Cna_B; pfam05738 882096007252 Collagen binding domain; Region: Collagen_bind; pfam05737 882096007253 Cna protein B-type domain; Region: Cna_B; pfam05738 882096007254 Cna protein B-type domain; Region: Cna_B; pfam05738 882096007255 Cna protein B-type domain; Region: Cna_B; pfam05738 882096007256 Cna protein B-type domain; Region: Cna_B; pfam05738 882096007257 Cna protein B-type domain; Region: Cna_B; pfam05738 882096007258 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096007259 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096007260 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096007261 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 882096007262 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 882096007263 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 882096007264 active site 882096007265 catalytic site [active] 882096007266 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 882096007267 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 882096007268 Walker A/P-loop; other site 882096007269 ATP binding site [chemical binding]; other site 882096007270 Q-loop/lid; other site 882096007271 ABC transporter signature motif; other site 882096007272 Walker B; other site 882096007273 D-loop; other site 882096007274 H-loop/switch region; other site 882096007275 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 882096007276 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 882096007277 ABC-ATPase subunit interface; other site 882096007278 dimer interface [polypeptide binding]; other site 882096007279 putative PBP binding regions; other site 882096007280 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 882096007281 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 882096007282 putative ligand binding residues [chemical binding]; other site 882096007283 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 882096007284 heme-binding site [chemical binding]; other site 882096007285 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 882096007286 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 882096007287 heme-binding site [chemical binding]; other site 882096007288 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 882096007289 heme-binding site [chemical binding]; other site 882096007290 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 882096007291 heme uptake protein IsdC; Region: IsdC; TIGR03656 882096007292 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 882096007293 heme-binding site [chemical binding]; other site 882096007294 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 882096007295 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 882096007296 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 882096007297 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 882096007298 active site 882096007299 Zn binding site [ion binding]; other site 882096007300 Competence protein CoiA-like family; Region: CoiA; cl11541 882096007301 Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]; Region: MecA; COG4862 882096007302 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 882096007303 ArsC family; Region: ArsC; pfam03960 882096007304 putative catalytic residues [active] 882096007305 thiol/disulfide switch; other site 882096007306 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 882096007307 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 882096007308 Walker A/P-loop; other site 882096007309 ATP binding site [chemical binding]; other site 882096007310 Q-loop/lid; other site 882096007311 ABC transporter signature motif; other site 882096007312 Walker B; other site 882096007313 D-loop; other site 882096007314 H-loop/switch region; other site 882096007315 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882096007316 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 882096007317 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 882096007318 Walker A/P-loop; other site 882096007319 ATP binding site [chemical binding]; other site 882096007320 Q-loop/lid; other site 882096007321 ABC transporter signature motif; other site 882096007322 Walker B; other site 882096007323 D-loop; other site 882096007324 H-loop/switch region; other site 882096007325 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882096007326 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 882096007327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007328 dimer interface [polypeptide binding]; other site 882096007329 conserved gate region; other site 882096007330 putative PBP binding loops; other site 882096007331 ABC-ATPase subunit interface; other site 882096007332 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882096007333 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007334 dimer interface [polypeptide binding]; other site 882096007335 conserved gate region; other site 882096007336 putative PBP binding loops; other site 882096007337 ABC-ATPase subunit interface; other site 882096007338 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 882096007339 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 882096007340 peptide binding site [polypeptide binding]; other site 882096007341 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 882096007342 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 882096007343 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 882096007344 active site 882096007345 HIGH motif; other site 882096007346 dimer interface [polypeptide binding]; other site 882096007347 KMSKS motif; other site 882096007348 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 882096007349 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096007350 MarR family; Region: MarR; pfam01047 882096007351 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 882096007352 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 882096007353 dimer interface [polypeptide binding]; other site 882096007354 active site 882096007355 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 882096007356 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 882096007357 dimer interface [polypeptide binding]; other site 882096007358 active site 882096007359 CoA binding pocket [chemical binding]; other site 882096007360 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 882096007361 SH3-like domain; Region: SH3_8; pfam13457 882096007362 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 882096007363 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 882096007364 catalytic core [active] 882096007365 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 882096007366 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 882096007367 Clp amino terminal domain; Region: Clp_N; pfam02861 882096007368 Clp amino terminal domain; Region: Clp_N; pfam02861 882096007369 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 882096007370 Walker A motif; other site 882096007371 ATP binding site [chemical binding]; other site 882096007372 Walker B motif; other site 882096007373 arginine finger; other site 882096007374 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 882096007375 Walker A motif; other site 882096007376 ATP binding site [chemical binding]; other site 882096007377 Walker B motif; other site 882096007378 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882096007379 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 882096007380 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 882096007381 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096007382 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 882096007383 active site 882096007384 motif I; other site 882096007385 motif II; other site 882096007386 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 882096007387 Predicted acetyltransferase [General function prediction only]; Region: COG3393 882096007388 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 882096007389 ferrochelatase; Provisional; Region: PRK12435 882096007390 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 882096007391 C-terminal domain interface [polypeptide binding]; other site 882096007392 active site 882096007393 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 882096007394 active site 882096007395 N-terminal domain interface [polypeptide binding]; other site 882096007396 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 882096007397 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 882096007398 substrate binding site [chemical binding]; other site 882096007399 active site 882096007400 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 882096007401 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 882096007402 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 882096007403 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882096007404 Walker A/P-loop; other site 882096007405 ATP binding site [chemical binding]; other site 882096007406 Q-loop/lid; other site 882096007407 ABC transporter signature motif; other site 882096007408 Walker B; other site 882096007409 D-loop; other site 882096007410 H-loop/switch region; other site 882096007411 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 882096007412 HIT family signature motif; other site 882096007413 catalytic residue [active] 882096007414 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 882096007415 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 882096007416 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 882096007417 SurA N-terminal domain; Region: SurA_N_3; cl07813 882096007418 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 882096007419 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 882096007420 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 882096007421 generic binding surface II; other site 882096007422 generic binding surface I; other site 882096007423 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096007424 Zn2+ binding site [ion binding]; other site 882096007425 Mg2+ binding site [ion binding]; other site 882096007426 Uncharacterized conserved protein [Function unknown]; Region: COG4717 882096007427 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 882096007428 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 882096007429 active site 882096007430 metal binding site [ion binding]; metal-binding site 882096007431 DNA binding site [nucleotide binding] 882096007432 hypothetical protein; Provisional; Region: PRK13676 882096007433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 882096007434 fumarate hydratase; Reviewed; Region: fumC; PRK00485 882096007435 Class II fumarases; Region: Fumarase_classII; cd01362 882096007436 active site 882096007437 tetramer interface [polypeptide binding]; other site 882096007438 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 882096007439 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882096007440 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882096007441 Walker A/P-loop; other site 882096007442 ATP binding site [chemical binding]; other site 882096007443 Q-loop/lid; other site 882096007444 ABC transporter signature motif; other site 882096007445 Walker B; other site 882096007446 D-loop; other site 882096007447 H-loop/switch region; other site 882096007448 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 882096007449 Transglycosylase; Region: Transgly; pfam00912 882096007450 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 882096007451 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882096007452 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 882096007453 Low molecular weight phosphatase family; Region: LMWPc; cl00105 882096007454 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 882096007455 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 882096007456 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 882096007457 Domain of unknown function DUF21; Region: DUF21; pfam01595 882096007458 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 882096007459 Transporter associated domain; Region: CorC_HlyC; smart01091 882096007460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096007461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096007462 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 882096007463 putative dimerization interface [polypeptide binding]; other site 882096007464 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 882096007465 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 882096007466 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 882096007467 active site 882096007468 FMN binding site [chemical binding]; other site 882096007469 substrate binding site [chemical binding]; other site 882096007470 putative catalytic residue [active] 882096007471 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 882096007472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096007473 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 882096007474 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 882096007475 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 882096007476 shikimate binding site; other site 882096007477 NAD(P) binding site [chemical binding]; other site 882096007478 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 882096007479 putative substrate translocation pore; other site 882096007480 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096007481 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 882096007482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096007483 putative substrate translocation pore; other site 882096007484 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882096007485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096007486 Walker A/P-loop; other site 882096007487 ATP binding site [chemical binding]; other site 882096007488 Q-loop/lid; other site 882096007489 ABC transporter signature motif; other site 882096007490 Walker B; other site 882096007491 D-loop; other site 882096007492 H-loop/switch region; other site 882096007493 Predicted transcriptional regulators [Transcription]; Region: COG1725 882096007494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882096007495 DNA-binding site [nucleotide binding]; DNA binding site 882096007496 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 882096007497 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 882096007498 DNA binding site [nucleotide binding] 882096007499 active site 882096007500 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 882096007501 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 882096007502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096007503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096007504 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 882096007505 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 882096007506 active site 882096007507 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_6; cd07242 882096007508 putative dimer interface [polypeptide binding]; other site 882096007509 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096007510 ligand binding site [chemical binding]; other site 882096007511 Zn binding site [ion binding]; other site 882096007512 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 882096007513 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 882096007514 active site 882096007515 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 882096007516 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096007517 active site 882096007518 catalytic tetrad [active] 882096007519 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 882096007520 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 882096007521 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 882096007522 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882096007523 substrate binding pocket [chemical binding]; other site 882096007524 membrane-bound complex binding site; other site 882096007525 hinge residues; other site 882096007526 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882096007527 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007528 dimer interface [polypeptide binding]; other site 882096007529 conserved gate region; other site 882096007530 putative PBP binding loops; other site 882096007531 ABC-ATPase subunit interface; other site 882096007532 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882096007533 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882096007534 Walker A/P-loop; other site 882096007535 ATP binding site [chemical binding]; other site 882096007536 Q-loop/lid; other site 882096007537 ABC transporter signature motif; other site 882096007538 Walker B; other site 882096007539 D-loop; other site 882096007540 H-loop/switch region; other site 882096007541 aspartate aminotransferase; Provisional; Region: PRK06348 882096007542 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 882096007543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096007544 homodimer interface [polypeptide binding]; other site 882096007545 catalytic residue [active] 882096007546 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 882096007547 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 882096007548 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 882096007549 motif II; other site 882096007550 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 882096007551 intracellular protease, PfpI family; Region: PfpI; TIGR01382 882096007552 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 882096007553 proposed catalytic triad [active] 882096007554 conserved cys residue [active] 882096007555 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 882096007556 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096007557 methionine cluster; other site 882096007558 active site 882096007559 phosphorylation site [posttranslational modification] 882096007560 metal binding site [ion binding]; metal-binding site 882096007561 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 882096007562 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096007563 Coenzyme A binding pocket [chemical binding]; other site 882096007564 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 882096007565 esterase; Provisional; Region: PRK10566 882096007566 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 882096007567 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096007568 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 882096007569 motif II; other site 882096007570 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 882096007571 Uncharacterized conserved protein [Function unknown]; Region: COG1284 882096007572 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882096007573 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882096007574 hypothetical protein; Provisional; Region: PRK13673 882096007575 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 882096007576 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 882096007577 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 882096007578 Part of AAA domain; Region: AAA_19; pfam13245 882096007579 Family description; Region: UvrD_C_2; pfam13538 882096007580 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 882096007581 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 882096007582 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 882096007583 IDEAL domain; Region: IDEAL; pfam08858 882096007584 ComK protein; Region: ComK; pfam06338 882096007585 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 882096007586 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882096007587 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 882096007588 non-specific DNA binding site [nucleotide binding]; other site 882096007589 salt bridge; other site 882096007590 sequence-specific DNA binding site [nucleotide binding]; other site 882096007591 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 882096007592 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 882096007593 active site 882096007594 phosphorylation site [posttranslational modification] 882096007595 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 882096007596 active site 882096007597 P-loop; other site 882096007598 phosphorylation site [posttranslational modification] 882096007599 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 882096007600 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 882096007601 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 882096007602 putative substrate binding site [chemical binding]; other site 882096007603 putative ATP binding site [chemical binding]; other site 882096007604 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882096007605 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 882096007606 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 882096007607 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 882096007608 trimer interface [polypeptide binding]; other site 882096007609 active site 882096007610 G bulge; other site 882096007611 Uncharacterized conserved protein [Function unknown]; Region: COG1683 882096007612 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 882096007613 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 882096007614 non-specific DNA interactions [nucleotide binding]; other site 882096007615 DNA binding site [nucleotide binding] 882096007616 sequence specific DNA binding site [nucleotide binding]; other site 882096007617 putative cAMP binding site [chemical binding]; other site 882096007618 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 882096007619 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 882096007620 substrate binding site [chemical binding]; other site 882096007621 ATP binding site [chemical binding]; other site 882096007622 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 882096007623 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 882096007624 RNA binding surface [nucleotide binding]; other site 882096007625 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 882096007626 active site 882096007627 uracil binding [chemical binding]; other site 882096007628 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 882096007629 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 882096007630 active site 882096007631 non-prolyl cis peptide bond; other site 882096007632 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 882096007633 catalytic residues [active] 882096007634 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 882096007635 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 882096007636 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882096007637 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882096007638 Walker A/P-loop; other site 882096007639 ATP binding site [chemical binding]; other site 882096007640 Q-loop/lid; other site 882096007641 ABC transporter signature motif; other site 882096007642 Walker B; other site 882096007643 D-loop; other site 882096007644 H-loop/switch region; other site 882096007645 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882096007646 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007647 dimer interface [polypeptide binding]; other site 882096007648 conserved gate region; other site 882096007649 putative PBP binding loops; other site 882096007650 ABC-ATPase subunit interface; other site 882096007651 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882096007652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007653 dimer interface [polypeptide binding]; other site 882096007654 conserved gate region; other site 882096007655 putative PBP binding loops; other site 882096007656 ABC-ATPase subunit interface; other site 882096007657 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882096007658 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 882096007659 substrate binding pocket [chemical binding]; other site 882096007660 membrane-bound complex binding site; other site 882096007661 hinge residues; other site 882096007662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096007663 Coenzyme A binding pocket [chemical binding]; other site 882096007664 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 882096007665 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 882096007666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882096007667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882096007668 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 882096007669 dimerization interface [polypeptide binding]; other site 882096007670 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 882096007671 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 882096007672 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 882096007673 active site 882096007674 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 882096007675 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096007676 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 882096007677 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096007678 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 882096007679 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 882096007680 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 882096007681 active site 882096007682 trimer interface [polypeptide binding]; other site 882096007683 allosteric site; other site 882096007684 active site lid [active] 882096007685 hexamer (dimer of trimers) interface [polypeptide binding]; other site 882096007686 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096007687 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 882096007688 active site 882096007689 motif I; other site 882096007690 motif II; other site 882096007691 Predicted membrane protein [Function unknown]; Region: COG1511 882096007692 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 882096007693 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 882096007694 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 882096007695 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 882096007696 Predicted transcriptional regulator [Transcription]; Region: COG1959 882096007697 Transcriptional regulator; Region: Rrf2; pfam02082 882096007698 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 882096007699 L-tyrosine decarboxylase; Provisional; Region: PRK13520 882096007700 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 882096007701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096007702 catalytic residue [active] 882096007703 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 882096007704 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096007705 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 882096007706 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882096007707 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 882096007708 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 882096007709 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 882096007710 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 882096007711 active site 882096007712 dimer interface [polypeptide binding]; other site 882096007713 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 882096007714 dimer interface [polypeptide binding]; other site 882096007715 active site 882096007716 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 882096007717 nudix motif; other site 882096007718 general stress protein 13; Validated; Region: PRK08059 882096007719 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 882096007720 RNA binding site [nucleotide binding]; other site 882096007721 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 882096007722 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 882096007723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096007724 homodimer interface [polypeptide binding]; other site 882096007725 catalytic residue [active] 882096007726 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 882096007727 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096007728 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096007729 Walker A/P-loop; other site 882096007730 ATP binding site [chemical binding]; other site 882096007731 Q-loop/lid; other site 882096007732 ABC transporter signature motif; other site 882096007733 Walker B; other site 882096007734 D-loop; other site 882096007735 H-loop/switch region; other site 882096007736 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096007737 active site 882096007738 P-loop; other site 882096007739 phosphorylation site [posttranslational modification] 882096007740 aspartate kinase; Reviewed; Region: PRK09034 882096007741 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 882096007742 putative catalytic residues [active] 882096007743 putative nucleotide binding site [chemical binding]; other site 882096007744 putative aspartate binding site [chemical binding]; other site 882096007745 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 882096007746 allosteric regulatory residue; other site 882096007747 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 882096007748 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; cl00197 882096007749 active site 882096007750 drug efflux system protein MdtG; Provisional; Region: PRK09874 882096007751 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 882096007752 putative substrate translocation pore; other site 882096007753 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 882096007754 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 882096007755 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 882096007756 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 882096007757 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 882096007758 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 882096007759 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 882096007760 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 882096007761 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 882096007762 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12585 882096007763 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 882096007764 CoenzymeA binding site [chemical binding]; other site 882096007765 subunit interaction site [polypeptide binding]; other site 882096007766 PHB binding site; other site 882096007767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1963 882096007768 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 882096007769 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 882096007770 Cl- selectivity filter; other site 882096007771 Cl- binding residues [ion binding]; other site 882096007772 pore gating glutamate residue; other site 882096007773 dimer interface [polypeptide binding]; other site 882096007774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 882096007775 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 882096007776 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096007777 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 882096007778 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 882096007779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096007780 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 882096007781 NADH(P)-binding; Region: NAD_binding_10; pfam13460 882096007782 NAD(P) binding site [chemical binding]; other site 882096007783 putative active site [active] 882096007784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4844 882096007785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4837 882096007786 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096007787 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096007788 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096007789 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096007790 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096007791 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 882096007792 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 882096007793 tetramer interfaces [polypeptide binding]; other site 882096007794 binuclear metal-binding site [ion binding]; other site 882096007795 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 882096007796 Domain of unknown function DUF21; Region: DUF21; pfam01595 882096007797 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 882096007798 Transporter associated domain; Region: CorC_HlyC; smart01091 882096007799 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 882096007800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096007801 Coenzyme A binding pocket [chemical binding]; other site 882096007802 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 882096007803 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 882096007804 active site 882096007805 motif I; other site 882096007806 motif II; other site 882096007807 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 882096007808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 882096007809 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 882096007810 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 882096007811 active site 882096007812 metal binding site [ion binding]; metal-binding site 882096007813 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 882096007814 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882096007815 Predicted membrane protein [Function unknown]; Region: COG4272 882096007816 Uncharacterized conserved protein [Function unknown]; Region: COG1801 882096007817 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 882096007818 non-specific DNA binding site [nucleotide binding]; other site 882096007819 salt bridge; other site 882096007820 sequence-specific DNA binding site [nucleotide binding]; other site 882096007821 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 882096007822 FeS assembly protein SufB; Region: sufB; TIGR01980 882096007823 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 882096007824 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 882096007825 trimerization site [polypeptide binding]; other site 882096007826 active site 882096007827 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 882096007828 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 882096007829 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882096007830 catalytic residue [active] 882096007831 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 882096007832 FeS assembly protein SufD; Region: sufD; TIGR01981 882096007833 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 882096007834 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 882096007835 Walker A/P-loop; other site 882096007836 ATP binding site [chemical binding]; other site 882096007837 Q-loop/lid; other site 882096007838 ABC transporter signature motif; other site 882096007839 Walker B; other site 882096007840 D-loop; other site 882096007841 H-loop/switch region; other site 882096007842 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 882096007843 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 882096007844 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096007845 ABC-ATPase subunit interface; other site 882096007846 putative PBP binding loops; other site 882096007847 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 882096007848 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 882096007849 Walker A/P-loop; other site 882096007850 ATP binding site [chemical binding]; other site 882096007851 Q-loop/lid; other site 882096007852 ABC transporter signature motif; other site 882096007853 Walker B; other site 882096007854 D-loop; other site 882096007855 H-loop/switch region; other site 882096007856 NIL domain; Region: NIL; pfam09383 882096007857 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 882096007858 dimer interface [polypeptide binding]; other site 882096007859 phosphorylation site [posttranslational modification] 882096007860 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 882096007861 ATP binding site [chemical binding]; other site 882096007862 Mg2+ binding site [ion binding]; other site 882096007863 G-X-G motif; other site 882096007864 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096007865 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 882096007866 active site 882096007867 phosphorylation site [posttranslational modification] 882096007868 intermolecular recognition site; other site 882096007869 dimerization interface [polypeptide binding]; other site 882096007870 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 882096007871 DNA binding site [nucleotide binding] 882096007872 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 882096007873 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 882096007874 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 882096007875 catalytic residues [active] 882096007876 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 882096007877 lipoyl attachment site [posttranslational modification]; other site 882096007878 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 882096007879 ArsC family; Region: ArsC; pfam03960 882096007880 putative ArsC-like catalytic residues; other site 882096007881 putative TRX-like catalytic residues [active] 882096007882 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 882096007883 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 882096007884 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 882096007885 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 882096007886 Walker A/P-loop; other site 882096007887 ATP binding site [chemical binding]; other site 882096007888 Q-loop/lid; other site 882096007889 ABC transporter signature motif; other site 882096007890 Walker B; other site 882096007891 D-loop; other site 882096007892 H-loop/switch region; other site 882096007893 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 882096007894 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 882096007895 ABC-ATPase subunit interface; other site 882096007896 dimer interface [polypeptide binding]; other site 882096007897 putative PBP binding regions; other site 882096007898 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 882096007899 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 882096007900 intersubunit interface [polypeptide binding]; other site 882096007901 Predicted esterase [General function prediction only]; Region: COG0627 882096007902 S-formylglutathione hydrolase; Region: PLN02442 882096007903 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 882096007904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096007905 catalytic residue [active] 882096007906 SdpI/YhfL protein family; Region: SdpI; pfam13630 882096007907 CAT RNA binding domain; Region: CAT_RBD; smart01061 882096007908 transcriptional antiterminator BglG; Provisional; Region: PRK09772 882096007909 PRD domain; Region: PRD; pfam00874 882096007910 PRD domain; Region: PRD; pfam00874 882096007911 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_24; cd09012 882096007912 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 882096007913 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 882096007914 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 882096007915 Predicted transcriptional regulator [Transcription]; Region: COG2378 882096007916 HTH domain; Region: HTH_11; pfam08279 882096007917 WYL domain; Region: WYL; pfam13280 882096007918 Uncharacterized conserved protein [Function unknown]; Region: COG1434 882096007919 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 882096007920 putative active site [active] 882096007921 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 882096007922 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 882096007923 active site 882096007924 catalytic site [active] 882096007925 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 882096007926 putative metal binding site [ion binding]; other site 882096007927 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 882096007928 putative metal binding site [ion binding]; other site 882096007929 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096007930 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 882096007931 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 882096007932 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 882096007933 active site 882096007934 catalytic site [active] 882096007935 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 882096007936 putative metal binding site [ion binding]; other site 882096007937 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 882096007938 non-specific DNA binding site [nucleotide binding]; other site 882096007939 salt bridge; other site 882096007940 sequence-specific DNA binding site [nucleotide binding]; other site 882096007941 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 882096007942 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 882096007943 SmpB-tmRNA interface; other site 882096007944 ribonuclease R; Region: RNase_R; TIGR02063 882096007945 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 882096007946 RNB domain; Region: RNB; pfam00773 882096007947 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 882096007948 RNA binding site [nucleotide binding]; other site 882096007949 Esterase/lipase [General function prediction only]; Region: COG1647 882096007950 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 882096007951 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 882096007952 Preprotein translocase SecG subunit; Region: SecG; cl09123 882096007953 Esterase/lipase [General function prediction only]; Region: COG1647 882096007954 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 882096007955 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 882096007956 PGAP1-like protein; Region: PGAP1; pfam07819 882096007957 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 882096007958 enolase; Provisional; Region: eno; PRK00077 882096007959 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 882096007960 dimer interface [polypeptide binding]; other site 882096007961 metal binding site [ion binding]; metal-binding site 882096007962 substrate binding pocket [chemical binding]; other site 882096007963 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 882096007964 phosphoglyceromutase; Provisional; Region: PRK05434 882096007965 triosephosphate isomerase; Provisional; Region: PRK14567 882096007966 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 882096007967 substrate binding site [chemical binding]; other site 882096007968 dimer interface [polypeptide binding]; other site 882096007969 catalytic triad [active] 882096007970 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 882096007971 Phosphoglycerate kinase; Region: PGK; pfam00162 882096007972 substrate binding site [chemical binding]; other site 882096007973 hinge regions; other site 882096007974 ADP binding site [chemical binding]; other site 882096007975 catalytic site [active] 882096007976 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 882096007977 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 882096007978 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 882096007979 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 882096007980 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 882096007981 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 882096007982 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 882096007983 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 882096007984 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096007985 DNA binding site [nucleotide binding] 882096007986 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 882096007987 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 882096007988 active site 882096007989 dimer interface [polypeptide binding]; other site 882096007990 MMPL family; Region: MMPL; pfam03176 882096007991 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 882096007992 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096007993 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096007994 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 882096007995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 882096007996 Chitin binding domain; Region: Chitin_bind_3; pfam03067 882096007997 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 882096007998 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 882096007999 Interdomain contacts; other site 882096008000 Cytokine receptor motif; other site 882096008001 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 882096008002 aromatic chitin/cellulose binding site residues [chemical binding]; other site 882096008003 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 882096008004 aromatic chitin/cellulose binding site residues [chemical binding]; other site 882096008005 Clp protease; Region: CLP_protease; pfam00574 882096008006 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 882096008007 oligomer interface [polypeptide binding]; other site 882096008008 active site residues [active] 882096008009 amino acid transporter; Region: 2A0306; TIGR00909 882096008010 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 882096008011 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 882096008012 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096008013 Substrate binding site [chemical binding]; other site 882096008014 Leucine rich repeat; Region: LRR_8; pfam13855 882096008015 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096008016 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 882096008017 phosphate binding site [ion binding]; other site 882096008018 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 882096008019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 882096008020 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 882096008021 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 882096008022 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 882096008023 phosphate binding site [ion binding]; other site 882096008024 putative substrate binding pocket [chemical binding]; other site 882096008025 dimer interface [polypeptide binding]; other site 882096008026 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 882096008027 AAA domain; Region: AAA_18; pfam13238 882096008028 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 882096008029 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 882096008030 active site 882096008031 substrate binding site [chemical binding]; other site 882096008032 metal binding site [ion binding]; metal-binding site 882096008033 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 882096008034 active site 882096008035 catalytic residues [active] 882096008036 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 882096008037 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 882096008038 NAD binding site [chemical binding]; other site 882096008039 homodimer interface [polypeptide binding]; other site 882096008040 active site 882096008041 substrate binding site [chemical binding]; other site 882096008042 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 882096008043 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 882096008044 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096008045 TPR repeat; Region: TPR_11; pfam13414 882096008046 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 882096008047 binding surface 882096008048 TPR motif; other site 882096008049 Tetratricopeptide repeat; Region: TPR_12; pfam13424 882096008050 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 882096008051 binding surface 882096008052 TPR motif; other site 882096008053 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 882096008054 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 882096008055 putative trimer interface [polypeptide binding]; other site 882096008056 putative CoA binding site [chemical binding]; other site 882096008057 pyrophosphatase PpaX; Provisional; Region: PRK13288 882096008058 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 882096008059 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 882096008060 motif II; other site 882096008061 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 882096008062 HPr kinase/phosphorylase; Provisional; Region: PRK05428 882096008063 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 882096008064 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 882096008065 Hpr binding site; other site 882096008066 active site 882096008067 homohexamer subunit interaction site [polypeptide binding]; other site 882096008068 Predicted membrane protein [Function unknown]; Region: COG1950 882096008069 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 882096008070 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 882096008071 Uncharacterized conserved protein [Function unknown]; Region: COG3595 882096008072 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 882096008073 Uncharacterized conserved protein [Function unknown]; Region: COG3595 882096008074 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 882096008075 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 882096008076 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 882096008077 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 882096008078 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 882096008079 excinuclease ABC subunit B; Provisional; Region: PRK05298 882096008080 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 882096008081 ATP binding site [chemical binding]; other site 882096008082 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 882096008083 nucleotide binding region [chemical binding]; other site 882096008084 ATP-binding site [chemical binding]; other site 882096008085 Ultra-violet resistance protein B; Region: UvrB; pfam12344 882096008086 UvrB/uvrC motif; Region: UVR; pfam02151 882096008087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CsbA; COG4897 882096008088 HD containing hydrolase-like enzyme; Region: HD_2; pfam12917 882096008089 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 882096008090 dimerization interface [polypeptide binding]; other site 882096008091 putative DNA binding site [nucleotide binding]; other site 882096008092 putative Zn2+ binding site [ion binding]; other site 882096008093 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 882096008094 PhoU domain; Region: PhoU; pfam01895 882096008095 PhoU domain; Region: PhoU; pfam01895 882096008096 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 882096008097 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 882096008098 Walker A/P-loop; other site 882096008099 ATP binding site [chemical binding]; other site 882096008100 Q-loop/lid; other site 882096008101 ABC transporter signature motif; other site 882096008102 Walker B; other site 882096008103 D-loop; other site 882096008104 H-loop/switch region; other site 882096008105 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 882096008106 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 882096008107 Walker A/P-loop; other site 882096008108 ATP binding site [chemical binding]; other site 882096008109 Q-loop/lid; other site 882096008110 ABC transporter signature motif; other site 882096008111 Walker B; other site 882096008112 D-loop; other site 882096008113 H-loop/switch region; other site 882096008114 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 882096008115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096008116 dimer interface [polypeptide binding]; other site 882096008117 conserved gate region; other site 882096008118 putative PBP binding loops; other site 882096008119 ABC-ATPase subunit interface; other site 882096008120 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 882096008121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096008122 dimer interface [polypeptide binding]; other site 882096008123 conserved gate region; other site 882096008124 putative PBP binding loops; other site 882096008125 ABC-ATPase subunit interface; other site 882096008126 PBP superfamily domain; Region: PBP_like_2; cl17296 882096008127 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 882096008128 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 882096008129 HAMP domain; Region: HAMP; pfam00672 882096008130 dimerization interface [polypeptide binding]; other site 882096008131 PAS domain; Region: PAS; smart00091 882096008132 putative active site [active] 882096008133 heme pocket [chemical binding]; other site 882096008134 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 882096008135 dimer interface [polypeptide binding]; other site 882096008136 phosphorylation site [posttranslational modification] 882096008137 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 882096008138 ATP binding site [chemical binding]; other site 882096008139 Mg2+ binding site [ion binding]; other site 882096008140 G-X-G motif; other site 882096008141 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096008142 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 882096008143 active site 882096008144 phosphorylation site [posttranslational modification] 882096008145 intermolecular recognition site; other site 882096008146 dimerization interface [polypeptide binding]; other site 882096008147 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 882096008148 DNA binding site [nucleotide binding] 882096008149 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 882096008150 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 882096008151 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 882096008152 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 882096008153 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 882096008154 putative active site [active] 882096008155 catalytic site [active] 882096008156 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 882096008157 putative active site [active] 882096008158 catalytic site [active] 882096008159 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 882096008160 Peptidase family M23; Region: Peptidase_M23; pfam01551 882096008161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 882096008162 NlpC/P60 family; Region: NLPC_P60; pfam00877 882096008163 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 882096008164 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 882096008165 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 882096008166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096008167 Walker A/P-loop; other site 882096008168 ATP binding site [chemical binding]; other site 882096008169 Q-loop/lid; other site 882096008170 ABC transporter signature motif; other site 882096008171 Walker B; other site 882096008172 D-loop; other site 882096008173 H-loop/switch region; other site 882096008174 Uncharacterized conserved protein [Function unknown]; Region: COG1284 882096008175 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882096008176 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882096008177 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882096008178 peptide chain release factor 2; Validated; Region: prfB; PRK00578 882096008179 This domain is found in peptide chain release factors; Region: PCRF; smart00937 882096008180 RF-1 domain; Region: RF-1; pfam00472 882096008181 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 882096008182 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 882096008183 nucleotide binding region [chemical binding]; other site 882096008184 helicase superfamily c-terminal domain; Region: HELICc; smart00490 882096008185 ATP-binding site [chemical binding]; other site 882096008186 SEC-C motif; Region: SEC-C; pfam02810 882096008187 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 882096008188 30S subunit binding site; other site 882096008189 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 882096008190 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096008191 active site 882096008192 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 882096008193 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 882096008194 ATP binding site [chemical binding]; other site 882096008195 putative Mg++ binding site [ion binding]; other site 882096008196 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 882096008197 nucleotide binding region [chemical binding]; other site 882096008198 ATP-binding site [chemical binding]; other site 882096008199 EDD domain protein, DegV family; Region: DegV; TIGR00762 882096008200 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 882096008201 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882096008202 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 882096008203 active site 882096008204 phosphorylation site [posttranslational modification] 882096008205 intermolecular recognition site; other site 882096008206 dimerization interface [polypeptide binding]; other site 882096008207 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 882096008208 DNA binding residues [nucleotide binding] 882096008209 dimerization interface [polypeptide binding]; other site 882096008210 Uncharacterized conserved protein [Function unknown]; Region: COG1739 882096008211 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 882096008212 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 882096008213 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 882096008214 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 882096008215 Transcriptional regulator [Transcription]; Region: LytR; COG1316 882096008216 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 882096008217 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 882096008218 Mg++ binding site [ion binding]; other site 882096008219 putative catalytic motif [active] 882096008220 substrate binding site [chemical binding]; other site 882096008221 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 882096008222 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 882096008223 active site 882096008224 octamer interface [polypeptide binding]; other site 882096008225 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 882096008226 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 882096008227 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096008228 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096008229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 882096008230 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 882096008231 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 882096008232 dimer interface [polypeptide binding]; other site 882096008233 ssDNA binding site [nucleotide binding]; other site 882096008234 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882096008235 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 882096008236 rod shape-determining protein Mbl; Provisional; Region: PRK13928 882096008237 MreB and similar proteins; Region: MreB_like; cd10225 882096008238 nucleotide binding site [chemical binding]; other site 882096008239 Mg binding site [ion binding]; other site 882096008240 putative protofilament interaction site [polypeptide binding]; other site 882096008241 RodZ interaction site [polypeptide binding]; other site 882096008242 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 882096008243 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 882096008244 hinge; other site 882096008245 active site 882096008246 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 882096008247 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 882096008248 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 882096008249 gamma subunit interface [polypeptide binding]; other site 882096008250 epsilon subunit interface [polypeptide binding]; other site 882096008251 LBP interface [polypeptide binding]; other site 882096008252 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 882096008253 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882096008254 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 882096008255 alpha subunit interaction interface [polypeptide binding]; other site 882096008256 Walker A motif; other site 882096008257 ATP binding site [chemical binding]; other site 882096008258 Walker B motif; other site 882096008259 inhibitor binding site; inhibition site 882096008260 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882096008261 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 882096008262 core domain interface [polypeptide binding]; other site 882096008263 delta subunit interface [polypeptide binding]; other site 882096008264 epsilon subunit interface [polypeptide binding]; other site 882096008265 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 882096008266 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882096008267 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 882096008268 beta subunit interaction interface [polypeptide binding]; other site 882096008269 Walker A motif; other site 882096008270 ATP binding site [chemical binding]; other site 882096008271 Walker B motif; other site 882096008272 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882096008273 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 882096008274 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 882096008275 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 882096008276 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 882096008277 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 882096008278 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 882096008279 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 882096008280 ATP synthase I chain; Region: ATP_synt_I; pfam03899 882096008281 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 882096008282 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 882096008283 active site 882096008284 homodimer interface [polypeptide binding]; other site 882096008285 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882096008286 active site 882096008287 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 882096008288 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 882096008289 dimer interface [polypeptide binding]; other site 882096008290 active site 882096008291 glycine-pyridoxal phosphate binding site [chemical binding]; other site 882096008292 folate binding site [chemical binding]; other site 882096008293 Low molecular weight phosphatase family; Region: LMWPc; cd00115 882096008294 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 882096008295 active site 882096008296 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 882096008297 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 882096008298 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 882096008299 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 882096008300 S-adenosylmethionine binding site [chemical binding]; other site 882096008301 peptide chain release factor 1; Validated; Region: prfA; PRK00591 882096008302 This domain is found in peptide chain release factors; Region: PCRF; smart00937 882096008303 RF-1 domain; Region: RF-1; pfam00472 882096008304 thymidine kinase; Provisional; Region: PRK04296 882096008305 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 882096008306 ATP binding site [chemical binding]; other site 882096008307 Walker A motif; other site 882096008308 Walker B motif; other site 882096008309 homoserine kinase; Provisional; Region: PRK01212 882096008310 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 882096008311 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 882096008312 threonine synthase; Reviewed; Region: PRK06721 882096008313 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 882096008314 homodimer interface [polypeptide binding]; other site 882096008315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096008316 catalytic residue [active] 882096008317 homoserine dehydrogenase; Provisional; Region: PRK06349 882096008318 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 882096008319 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 882096008320 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 882096008321 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 882096008322 Predicted membrane protein [Function unknown]; Region: COG2246 882096008323 GtrA-like protein; Region: GtrA; pfam04138 882096008324 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 882096008325 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 882096008326 Ligand binding site; other site 882096008327 Putative Catalytic site; other site 882096008328 DXD motif; other site 882096008329 transcription termination factor Rho; Provisional; Region: rho; PRK09376 882096008330 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 882096008331 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 882096008332 RNA binding site [nucleotide binding]; other site 882096008333 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 882096008334 multimer interface [polypeptide binding]; other site 882096008335 Walker A motif; other site 882096008336 ATP binding site [chemical binding]; other site 882096008337 Walker B motif; other site 882096008338 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 882096008339 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 882096008340 hinge; other site 882096008341 active site 882096008342 Predicted integral membrane protein [Function unknown]; Region: COG0392 882096008343 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882096008344 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 882096008345 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882096008346 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 882096008347 putative ADP-binding pocket [chemical binding]; other site 882096008348 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 882096008349 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 882096008350 intersubunit interface [polypeptide binding]; other site 882096008351 active site 882096008352 zinc binding site [ion binding]; other site 882096008353 Na+ binding site [ion binding]; other site 882096008354 putative lipid kinase; Reviewed; Region: PRK13055 882096008355 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 882096008356 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 882096008357 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 882096008358 amidase catalytic site [active] 882096008359 Zn binding residues [ion binding]; other site 882096008360 substrate binding site [chemical binding]; other site 882096008361 SH3-like domain; Region: SH3_8; pfam13457 882096008362 SH3-like domain; Region: SH3_8; pfam13457 882096008363 SH3-like domain; Region: SH3_8; pfam13457 882096008364 SH3-like domain; Region: SH3_8; pfam13457 882096008365 CTP synthetase; Validated; Region: pyrG; PRK05380 882096008366 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 882096008367 Catalytic site [active] 882096008368 active site 882096008369 UTP binding site [chemical binding]; other site 882096008370 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 882096008371 active site 882096008372 putative oxyanion hole; other site 882096008373 catalytic triad [active] 882096008374 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 882096008375 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 882096008376 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 882096008377 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 882096008378 active site 882096008379 HIGH motif; other site 882096008380 KMSK motif region; other site 882096008381 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 882096008382 tRNA binding surface [nucleotide binding]; other site 882096008383 anticodon binding site; other site 882096008384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4506 882096008385 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 882096008386 Peptidase family M50; Region: Peptidase_M50; pfam02163 882096008387 active site 882096008388 putative substrate binding region [chemical binding]; other site 882096008389 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; cd00491 882096008390 active site 1 [active] 882096008391 dimer interface [polypeptide binding]; other site 882096008392 hexamer interface [polypeptide binding]; other site 882096008393 active site 2 [active] 882096008394 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 882096008395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096008396 Zn2+ binding site [ion binding]; other site 882096008397 Mg2+ binding site [ion binding]; other site 882096008398 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 882096008399 conserved hypothetical protein TIGR01655; Region: yxeA_fam 882096008400 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 882096008401 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 882096008402 peptide binding site [polypeptide binding]; other site 882096008403 Predicted integral membrane protein [Function unknown]; Region: COG5658 882096008404 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 882096008405 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 882096008406 catalytic triad [active] 882096008407 metal binding site [ion binding]; metal-binding site 882096008408 conserved cis-peptide bond; other site 882096008409 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl17426 882096008410 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 882096008411 folate binding site [chemical binding]; other site 882096008412 NADP+ binding site [chemical binding]; other site 882096008413 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 882096008414 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 882096008415 putative NAD(P) binding site [chemical binding]; other site 882096008416 dimer interface [polypeptide binding]; other site 882096008417 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 882096008418 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 882096008419 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 882096008420 Collagen binding domain; Region: Collagen_bind; pfam05737 882096008421 Collagen binding domain; Region: Collagen_bind; pfam05737 882096008422 Collagen binding domain; Region: Collagen_bind; pfam05737 882096008423 Cna protein B-type domain; Region: Cna_B; pfam05738 882096008424 Cna protein B-type domain; Region: Cna_B; pfam05738 882096008425 Cna protein B-type domain; Region: Cna_B; pfam05738 882096008426 Cna protein B-type domain; Region: Cna_B; pfam05738 882096008427 Cna protein B-type domain; Region: Cna_B; pfam05738 882096008428 Cna protein B-type domain; Region: Cna_B; pfam05738 882096008429 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096008430 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096008431 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 882096008432 active site 882096008433 motif I; other site 882096008434 motif II; other site 882096008435 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 882096008436 Uncharacterized conserved protein [Function unknown]; Region: COG1359 882096008437 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882096008438 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882096008439 Walker A/P-loop; other site 882096008440 ATP binding site [chemical binding]; other site 882096008441 Q-loop/lid; other site 882096008442 ABC transporter signature motif; other site 882096008443 Walker B; other site 882096008444 D-loop; other site 882096008445 H-loop/switch region; other site 882096008446 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882096008447 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 882096008448 FtsX-like permease family; Region: FtsX; pfam02687 882096008449 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 882096008450 dimerization interface [polypeptide binding]; other site 882096008451 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 882096008452 dimer interface [polypeptide binding]; other site 882096008453 phosphorylation site [posttranslational modification] 882096008454 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 882096008455 ATP binding site [chemical binding]; other site 882096008456 Mg2+ binding site [ion binding]; other site 882096008457 G-X-G motif; other site 882096008458 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096008459 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 882096008460 active site 882096008461 phosphorylation site [posttranslational modification] 882096008462 intermolecular recognition site; other site 882096008463 dimerization interface [polypeptide binding]; other site 882096008464 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 882096008465 DNA binding site [nucleotide binding] 882096008466 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 882096008467 Uncharacterized conserved protein [Function unknown]; Region: COG2427 882096008468 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 882096008469 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 882096008470 catalytic loop [active] 882096008471 iron binding site [ion binding]; other site 882096008472 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 882096008473 4Fe-4S binding domain; Region: Fer4; pfam00037 882096008474 4Fe-4S binding domain; Region: Fer4; pfam00037 882096008475 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 882096008476 [4Fe-4S] binding site [ion binding]; other site 882096008477 molybdopterin cofactor binding site; other site 882096008478 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 882096008479 molybdopterin cofactor binding site; other site 882096008480 Uncharacterized conserved protein [Function unknown]; Region: COG1912 882096008481 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 882096008482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096008483 putative substrate translocation pore; other site 882096008484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096008485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096008486 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 882096008487 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 882096008488 Walker A motif; other site 882096008489 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 882096008490 SH3-like domain; Region: SH3_8; pfam13457 882096008491 SH3-like domain; Region: SH3_8; pfam13457 882096008492 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 882096008493 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096008494 active site 882096008495 catalytic tetrad [active] 882096008496 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 882096008497 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 882096008498 DNA binding residues [nucleotide binding] 882096008499 putative dimer interface [polypeptide binding]; other site 882096008500 CRISPR/Cas system-associated protein Csn2; Region: Csn2_like; cl09913 882096008501 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 882096008502 tetramer interface [polypeptide binding]; other site 882096008503 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 882096008504 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 882096008505 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 882096008506 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 882096008507 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 882096008508 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 882096008509 23S rRNA interface [nucleotide binding]; other site 882096008510 L3 interface [polypeptide binding]; other site 882096008511 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 882096008512 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 882096008513 dimerization interface 3.5A [polypeptide binding]; other site 882096008514 active site 882096008515 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 882096008516 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 882096008517 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 882096008518 Walker A/P-loop; other site 882096008519 ATP binding site [chemical binding]; other site 882096008520 Q-loop/lid; other site 882096008521 ABC transporter signature motif; other site 882096008522 Walker B; other site 882096008523 D-loop; other site 882096008524 H-loop/switch region; other site 882096008525 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 882096008526 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 882096008527 Walker A/P-loop; other site 882096008528 ATP binding site [chemical binding]; other site 882096008529 Q-loop/lid; other site 882096008530 ABC transporter signature motif; other site 882096008531 Walker B; other site 882096008532 D-loop; other site 882096008533 H-loop/switch region; other site 882096008534 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 882096008535 MgtC family; Region: MgtC; pfam02308 882096008536 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 882096008537 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 882096008538 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 882096008539 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 882096008540 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 882096008541 alphaNTD - beta interaction site [polypeptide binding]; other site 882096008542 alphaNTD homodimer interface [polypeptide binding]; other site 882096008543 alphaNTD - beta' interaction site [polypeptide binding]; other site 882096008544 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 882096008545 30S ribosomal protein S11; Validated; Region: PRK05309 882096008546 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 882096008547 30S ribosomal protein S13; Region: bact_S13; TIGR03631 882096008548 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 882096008549 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 882096008550 rRNA binding site [nucleotide binding]; other site 882096008551 predicted 30S ribosome binding site; other site 882096008552 adenylate kinase; Reviewed; Region: adk; PRK00279 882096008553 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 882096008554 AMP-binding site [chemical binding]; other site 882096008555 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 882096008556 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 882096008557 SecY translocase; Region: SecY; pfam00344 882096008558 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 882096008559 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 882096008560 23S rRNA binding site [nucleotide binding]; other site 882096008561 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 882096008562 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 882096008563 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 882096008564 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 882096008565 5S rRNA interface [nucleotide binding]; other site 882096008566 L27 interface [polypeptide binding]; other site 882096008567 23S rRNA interface [nucleotide binding]; other site 882096008568 L5 interface [polypeptide binding]; other site 882096008569 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 882096008570 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 882096008571 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 882096008572 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 882096008573 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 882096008574 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 882096008575 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 882096008576 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 882096008577 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 882096008578 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 882096008579 RNA binding site [nucleotide binding]; other site 882096008580 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 882096008581 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 882096008582 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 882096008583 23S rRNA interface [nucleotide binding]; other site 882096008584 putative translocon interaction site; other site 882096008585 signal recognition particle (SRP54) interaction site; other site 882096008586 L23 interface [polypeptide binding]; other site 882096008587 trigger factor interaction site; other site 882096008588 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 882096008589 23S rRNA interface [nucleotide binding]; other site 882096008590 5S rRNA interface [nucleotide binding]; other site 882096008591 putative antibiotic binding site [chemical binding]; other site 882096008592 L25 interface [polypeptide binding]; other site 882096008593 L27 interface [polypeptide binding]; other site 882096008594 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 882096008595 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 882096008596 G-X-X-G motif; other site 882096008597 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 882096008598 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 882096008599 putative translocon binding site; other site 882096008600 protein-rRNA interface [nucleotide binding]; other site 882096008601 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 882096008602 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 882096008603 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 882096008604 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 882096008605 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 882096008606 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 882096008607 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 882096008608 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 882096008609 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 882096008610 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 882096008611 UbiA prenyltransferase family; Region: UbiA; pfam01040 882096008612 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 882096008613 UbiA prenyltransferase family; Region: UbiA; pfam01040 882096008614 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 882096008615 ApbE family; Region: ApbE; pfam02424 882096008616 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 882096008617 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 882096008618 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 882096008619 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 882096008620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882096008621 Predicted membrane protein [Function unknown]; Region: COG2259 882096008622 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 882096008623 trimer interface [polypeptide binding]; other site 882096008624 Predicted membrane protein [Function unknown]; Region: COG4769 882096008625 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 882096008626 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 882096008627 substrate binding pocket [chemical binding]; other site 882096008628 chain length determination region; other site 882096008629 substrate-Mg2+ binding site; other site 882096008630 catalytic residues [active] 882096008631 aspartate-rich region 1; other site 882096008632 active site lid residues [active] 882096008633 aspartate-rich region 2; other site 882096008634 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 882096008635 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 882096008636 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 882096008637 active site 882096008638 metal binding site [ion binding]; metal-binding site 882096008639 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 882096008640 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 882096008641 hypothetical protein; Provisional; Region: PRK02947 882096008642 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 882096008643 putative active site [active] 882096008644 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 882096008645 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 882096008646 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 882096008647 active site 882096008648 substrate binding pocket [chemical binding]; other site 882096008649 homodimer interaction site [polypeptide binding]; other site 882096008650 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 882096008651 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 882096008652 active site 882096008653 P-loop; other site 882096008654 phosphorylation site [posttranslational modification] 882096008655 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 882096008656 active site 882096008657 phosphorylation site [posttranslational modification] 882096008658 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096008659 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096008660 PRD domain; Region: PRD; pfam00874 882096008661 PRD domain; Region: PRD; pfam00874 882096008662 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096008663 active site 882096008664 P-loop; other site 882096008665 phosphorylation site [posttranslational modification] 882096008666 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 882096008667 active site 882096008668 phosphorylation site [posttranslational modification] 882096008669 elongation factor Tu; Reviewed; Region: PRK00049 882096008670 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 882096008671 G1 box; other site 882096008672 GEF interaction site [polypeptide binding]; other site 882096008673 GTP/Mg2+ binding site [chemical binding]; other site 882096008674 Switch I region; other site 882096008675 G2 box; other site 882096008676 G3 box; other site 882096008677 Switch II region; other site 882096008678 G4 box; other site 882096008679 G5 box; other site 882096008680 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 882096008681 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 882096008682 Antibiotic Binding Site [chemical binding]; other site 882096008683 elongation factor G; Reviewed; Region: PRK00007 882096008684 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 882096008685 G1 box; other site 882096008686 putative GEF interaction site [polypeptide binding]; other site 882096008687 GTP/Mg2+ binding site [chemical binding]; other site 882096008688 Switch I region; other site 882096008689 G2 box; other site 882096008690 G3 box; other site 882096008691 Switch II region; other site 882096008692 G4 box; other site 882096008693 G5 box; other site 882096008694 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 882096008695 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 882096008696 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 882096008697 30S ribosomal protein S7; Validated; Region: PRK05302 882096008698 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 882096008699 S17 interaction site [polypeptide binding]; other site 882096008700 S8 interaction site; other site 882096008701 16S rRNA interaction site [nucleotide binding]; other site 882096008702 streptomycin interaction site [chemical binding]; other site 882096008703 23S rRNA interaction site [nucleotide binding]; other site 882096008704 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 882096008705 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 882096008706 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882096008707 Zn2+ binding site [ion binding]; other site 882096008708 Mg2+ binding site [ion binding]; other site 882096008709 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 882096008710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096008711 Coenzyme A binding pocket [chemical binding]; other site 882096008712 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 882096008713 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 882096008714 substrate binding site [chemical binding]; other site 882096008715 hexamer interface [polypeptide binding]; other site 882096008716 metal binding site [ion binding]; metal-binding site 882096008717 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 882096008718 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 882096008719 TPP-binding site [chemical binding]; other site 882096008720 dimer interface [polypeptide binding]; other site 882096008721 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 882096008722 PYR/PP interface [polypeptide binding]; other site 882096008723 dimer interface [polypeptide binding]; other site 882096008724 TPP binding site [chemical binding]; other site 882096008725 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 882096008726 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 882096008727 substrate binding site [chemical binding]; other site 882096008728 hexamer interface [polypeptide binding]; other site 882096008729 metal binding site [ion binding]; metal-binding site 882096008730 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 882096008731 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882096008732 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 882096008733 putative NAD(P) binding site [chemical binding]; other site 882096008734 catalytic Zn binding site [ion binding]; other site 882096008735 structural Zn binding site [ion binding]; other site 882096008736 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882096008737 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 882096008738 putative NAD(P) binding site [chemical binding]; other site 882096008739 catalytic Zn binding site [ion binding]; other site 882096008740 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 882096008741 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 882096008742 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 882096008743 active site 882096008744 P-loop; other site 882096008745 phosphorylation site [posttranslational modification] 882096008746 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 882096008747 active site 882096008748 phosphorylation site [posttranslational modification] 882096008749 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096008750 PRD domain; Region: PRD; pfam00874 882096008751 PRD domain; Region: PRD; pfam00874 882096008752 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096008753 active site 882096008754 P-loop; other site 882096008755 phosphorylation site [posttranslational modification] 882096008756 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 882096008757 active site 882096008758 phosphorylation site [posttranslational modification] 882096008759 Predicted membrane protein [Function unknown]; Region: COG4905 882096008760 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 882096008761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 882096008762 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 882096008763 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 882096008764 active site 882096008765 Helix-turn-helix domain; Region: HTH_18; pfam12833 882096008766 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 882096008767 Ligand Binding Site [chemical binding]; other site 882096008768 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 882096008769 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 882096008770 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 882096008771 active site 882096008772 DNA binding site [nucleotide binding] 882096008773 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 882096008774 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 882096008775 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882096008776 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 882096008777 active site 882096008778 phosphorylation site [posttranslational modification] 882096008779 intermolecular recognition site; other site 882096008780 dimerization interface [polypeptide binding]; other site 882096008781 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 882096008782 DNA binding site [nucleotide binding] 882096008783 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 882096008784 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 882096008785 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 882096008786 Ligand Binding Site [chemical binding]; other site 882096008787 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 882096008788 GAF domain; Region: GAF_3; pfam13492 882096008789 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 882096008790 dimer interface [polypeptide binding]; other site 882096008791 phosphorylation site [posttranslational modification] 882096008792 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 882096008793 ATP binding site [chemical binding]; other site 882096008794 Mg2+ binding site [ion binding]; other site 882096008795 G-X-G motif; other site 882096008796 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 882096008797 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 882096008798 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882096008799 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 882096008800 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096008801 active site 882096008802 P-loop; other site 882096008803 phosphorylation site [posttranslational modification] 882096008804 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096008805 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096008806 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096008807 methionine cluster; other site 882096008808 active site 882096008809 phosphorylation site [posttranslational modification] 882096008810 metal binding site [ion binding]; metal-binding site 882096008811 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 882096008812 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 882096008813 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 882096008814 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 882096008815 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882096008816 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 882096008817 Soluble P-type ATPase [General function prediction only]; Region: COG4087 882096008818 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 882096008819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096008820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096008821 autolysin; Reviewed; Region: PRK06347 882096008822 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 882096008823 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096008824 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096008825 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096008826 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882096008827 Protein of unknown function (DUF970); Region: DUF970; pfam06153 882096008828 thymidylate kinase; Validated; Region: tmk; PRK00698 882096008829 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 882096008830 TMP-binding site; other site 882096008831 ATP-binding site [chemical binding]; other site 882096008832 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 882096008833 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 882096008834 homodimer interface [polypeptide binding]; other site 882096008835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096008836 catalytic residue [active] 882096008837 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 882096008838 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 882096008839 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 882096008840 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 882096008841 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 882096008842 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 882096008843 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882096008844 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 882096008845 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 882096008846 putative active site [active] 882096008847 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882096008848 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 882096008849 active site 882096008850 motif I; other site 882096008851 motif II; other site 882096008852 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 882096008853 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 882096008854 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882096008855 active site 882096008856 catalytic tetrad [active] 882096008857 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 882096008858 recombination protein RecR; Reviewed; Region: recR; PRK00076 882096008859 RecR protein; Region: RecR; pfam02132 882096008860 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 882096008861 putative active site [active] 882096008862 putative metal-binding site [ion binding]; other site 882096008863 tetramer interface [polypeptide binding]; other site 882096008864 hypothetical protein; Validated; Region: PRK00153 882096008865 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 882096008866 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 882096008867 Walker A motif; other site 882096008868 ATP binding site [chemical binding]; other site 882096008869 Walker B motif; other site 882096008870 arginine finger; other site 882096008871 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 882096008872 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 882096008873 Protein of unknown function (DUF3188); Region: DUF3188; pfam11384 882096008874 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096008875 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096008876 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 882096008877 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 882096008878 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 882096008879 N- and C-terminal domain interface [polypeptide binding]; other site 882096008880 active site 882096008881 catalytic site [active] 882096008882 metal binding site [ion binding]; metal-binding site 882096008883 carbohydrate binding site [chemical binding]; other site 882096008884 ATP binding site [chemical binding]; other site 882096008885 SH3-like domain; Region: SH3_8; pfam13457 882096008886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 882096008887 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 882096008888 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096008889 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 882096008890 Walker A/P-loop; other site 882096008891 ATP binding site [chemical binding]; other site 882096008892 Q-loop/lid; other site 882096008893 ABC transporter signature motif; other site 882096008894 Walker B; other site 882096008895 D-loop; other site 882096008896 H-loop/switch region; other site 882096008897 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 882096008898 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096008899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096008900 Walker A/P-loop; other site 882096008901 ATP binding site [chemical binding]; other site 882096008902 Q-loop/lid; other site 882096008903 ABC transporter signature motif; other site 882096008904 Walker B; other site 882096008905 D-loop; other site 882096008906 H-loop/switch region; other site 882096008907 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 882096008908 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 882096008909 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 882096008910 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 882096008911 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 882096008912 nucleoside/Zn binding site; other site 882096008913 dimer interface [polypeptide binding]; other site 882096008914 catalytic motif [active] 882096008915 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 882096008916 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 882096008917 active site 882096008918 acyl-activating enzyme (AAE) consensus motif; other site 882096008919 putative CoA binding site [chemical binding]; other site 882096008920 AMP binding site [chemical binding]; other site 882096008921 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 882096008922 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 882096008923 active site 882096008924 trimer interface [polypeptide binding]; other site 882096008925 allosteric site; other site 882096008926 active site lid [active] 882096008927 hexamer (dimer of trimers) interface [polypeptide binding]; other site 882096008928 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 882096008929 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 882096008930 DNA binding residues [nucleotide binding] 882096008931 drug binding residues [chemical binding]; other site 882096008932 dimer interface [polypeptide binding]; other site 882096008933 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 882096008934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882096008935 Coenzyme A binding pocket [chemical binding]; other site 882096008936 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 882096008937 dimer interface [polypeptide binding]; other site 882096008938 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 882096008939 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 882096008940 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882096008941 MarR family; Region: MarR; pfam01047 882096008942 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 882096008943 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 882096008944 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 882096008945 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 882096008946 DNA binding residues [nucleotide binding] 882096008947 putative dimer interface [polypeptide binding]; other site 882096008948 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 882096008949 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 882096008950 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 882096008951 active site 882096008952 motif I; other site 882096008953 motif II; other site 882096008954 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882096008955 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 882096008956 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 882096008957 putative active site [active] 882096008958 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 882096008959 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 882096008960 active site 882096008961 phosphorylation site [posttranslational modification] 882096008962 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 882096008963 active site 882096008964 P-loop; other site 882096008965 phosphorylation site [posttranslational modification] 882096008966 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 882096008967 alpha-mannosidase; Provisional; Region: PRK09819 882096008968 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 882096008969 active site 882096008970 metal binding site [ion binding]; metal-binding site 882096008971 catalytic site [active] 882096008972 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 882096008973 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 882096008974 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 882096008975 active site 882096008976 homodimer interface [polypeptide binding]; other site 882096008977 catalytic site [active] 882096008978 glycerate kinase; Region: TIGR00045 882096008979 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096008980 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096008981 DNA binding site [nucleotide binding] 882096008982 domain linker motif; other site 882096008983 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 882096008984 putative dimerization interface [polypeptide binding]; other site 882096008985 putative ligand binding site [chemical binding]; other site 882096008986 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 882096008987 Domain of unknown function DUF21; Region: DUF21; pfam01595 882096008988 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 882096008989 Transporter associated domain; Region: CorC_HlyC; pfam03471 882096008990 NAD-dependent deacetylase; Provisional; Region: PRK00481 882096008991 SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone...; Region: SIR2H; cd01411 882096008992 NAD+ binding site [chemical binding]; other site 882096008993 substrate binding site [chemical binding]; other site 882096008994 putative Zn binding site [ion binding]; other site 882096008995 Pathogenicity locus; Region: Cdd1; pfam11731 882096008996 drug efflux system protein MdtG; Provisional; Region: PRK09874 882096008997 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 882096008998 putative substrate translocation pore; other site 882096008999 Src Homology 3 domain superfamily; Region: SH3; cl17036 882096009000 Variant SH3 domain; Region: SH3_2; pfam07653 882096009001 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 882096009002 active site 882096009003 intersubunit interactions; other site 882096009004 catalytic residue [active] 882096009005 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882096009006 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882096009007 ligand binding site [chemical binding]; other site 882096009008 flexible hinge region; other site 882096009009 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882096009010 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096009011 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096009012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096009013 Walker A/P-loop; other site 882096009014 ATP binding site [chemical binding]; other site 882096009015 Q-loop/lid; other site 882096009016 ABC transporter signature motif; other site 882096009017 Walker B; other site 882096009018 D-loop; other site 882096009019 H-loop/switch region; other site 882096009020 TfoX C-terminal domain; Region: TfoX_C; pfam04994 882096009021 seryl-tRNA synthetase; Provisional; Region: PRK05431 882096009022 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 882096009023 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 882096009024 dimer interface [polypeptide binding]; other site 882096009025 active site 882096009026 motif 1; other site 882096009027 motif 2; other site 882096009028 motif 3; other site 882096009029 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 882096009030 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 882096009031 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 882096009032 Glutamine amidotransferase class-I; Region: GATase; pfam00117 882096009033 glutamine binding [chemical binding]; other site 882096009034 catalytic triad [active] 882096009035 aminodeoxychorismate synthase; Provisional; Region: PRK07508 882096009036 chorismate binding enzyme; Region: Chorismate_bind; cl10555 882096009037 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 882096009038 substrate-cofactor binding pocket; other site 882096009039 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 882096009040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096009041 catalytic residue [active] 882096009042 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096009043 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096009044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096009045 Walker A/P-loop; other site 882096009046 ATP binding site [chemical binding]; other site 882096009047 Q-loop/lid; other site 882096009048 ABC transporter signature motif; other site 882096009049 Walker B; other site 882096009050 D-loop; other site 882096009051 H-loop/switch region; other site 882096009052 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882096009053 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882096009054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882096009055 Walker A/P-loop; other site 882096009056 ATP binding site [chemical binding]; other site 882096009057 Q-loop/lid; other site 882096009058 ABC transporter signature motif; other site 882096009059 Walker B; other site 882096009060 D-loop; other site 882096009061 H-loop/switch region; other site 882096009062 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 882096009063 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 882096009064 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 882096009065 Predicted acyl esterases [General function prediction only]; Region: COG2936 882096009066 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 882096009067 DNA topoisomerase III; Provisional; Region: PRK07726 882096009068 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 882096009069 active site 882096009070 putative interdomain interaction site [polypeptide binding]; other site 882096009071 putative metal-binding site [ion binding]; other site 882096009072 putative nucleotide binding site [chemical binding]; other site 882096009073 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 882096009074 domain I; other site 882096009075 DNA binding groove [nucleotide binding] 882096009076 phosphate binding site [ion binding]; other site 882096009077 domain II; other site 882096009078 domain III; other site 882096009079 nucleotide binding site [chemical binding]; other site 882096009080 catalytic site [active] 882096009081 domain IV; other site 882096009082 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 882096009083 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 882096009084 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 882096009085 ATP binding site [chemical binding]; other site 882096009086 putative Mg++ binding site [ion binding]; other site 882096009087 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 882096009088 nucleotide binding region [chemical binding]; other site 882096009089 ATP-binding site [chemical binding]; other site 882096009090 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 882096009091 HRDC domain; Region: HRDC; pfam00570 882096009092 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 882096009093 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 882096009094 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 882096009095 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 882096009096 active site 882096009097 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 882096009098 putative ADP-ribose binding site [chemical binding]; other site 882096009099 putative active site [active] 882096009100 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 882096009101 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096009102 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096009103 ABC transporter; Region: ABC_tran_2; pfam12848 882096009104 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882096009105 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 882096009106 beta-galactosidase; Region: BGL; TIGR03356 882096009107 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096009108 active site 882096009109 P-loop; other site 882096009110 phosphorylation site [posttranslational modification] 882096009111 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 882096009112 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096009113 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096009114 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096009115 nucleotide binding site [chemical binding]; other site 882096009116 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096009117 methionine cluster; other site 882096009118 active site 882096009119 phosphorylation site [posttranslational modification] 882096009120 metal binding site [ion binding]; metal-binding site 882096009121 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882096009122 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 882096009123 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 882096009124 putative active site [active] 882096009125 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 882096009126 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 882096009127 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 882096009128 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882096009129 Walker A/P-loop; other site 882096009130 ATP binding site [chemical binding]; other site 882096009131 Q-loop/lid; other site 882096009132 ABC transporter signature motif; other site 882096009133 Walker B; other site 882096009134 D-loop; other site 882096009135 H-loop/switch region; other site 882096009136 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 882096009137 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 882096009138 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882096009139 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 882096009140 beta-galactosidase; Region: BGL; TIGR03356 882096009141 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 882096009142 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 882096009143 active site turn [active] 882096009144 phosphorylation site [posttranslational modification] 882096009145 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 882096009146 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 882096009147 HPr interaction site; other site 882096009148 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882096009149 active site 882096009150 phosphorylation site [posttranslational modification] 882096009151 transcriptional antiterminator BglG; Provisional; Region: PRK09772 882096009152 CAT RNA binding domain; Region: CAT_RBD; smart01061 882096009153 PRD domain; Region: PRD; pfam00874 882096009154 PRD domain; Region: PRD; pfam00874 882096009155 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 882096009156 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 882096009157 putative substrate translocation pore; other site 882096009158 GTP-binding protein YchF; Reviewed; Region: PRK09601 882096009159 YchF GTPase; Region: YchF; cd01900 882096009160 G1 box; other site 882096009161 GTP/Mg2+ binding site [chemical binding]; other site 882096009162 Switch I region; other site 882096009163 G2 box; other site 882096009164 Switch II region; other site 882096009165 G3 box; other site 882096009166 G4 box; other site 882096009167 G5 box; other site 882096009168 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 882096009169 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 882096009170 methionine cluster; other site 882096009171 active site 882096009172 phosphorylation site [posttranslational modification] 882096009173 metal binding site [ion binding]; metal-binding site 882096009174 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 882096009175 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 882096009176 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 882096009177 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 882096009178 active site 882096009179 P-loop; other site 882096009180 phosphorylation site [posttranslational modification] 882096009181 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 882096009182 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 882096009183 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 882096009184 HTH domain; Region: HTH_11; pfam08279 882096009185 Mga helix-turn-helix domain; Region: Mga; pfam05043 882096009186 PRD domain; Region: PRD; pfam00874 882096009187 PRD domain; Region: PRD; pfam00874 882096009188 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 882096009189 active site 882096009190 P-loop; other site 882096009191 phosphorylation site [posttranslational modification] 882096009192 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 882096009193 active site 882096009194 phosphorylation site [posttranslational modification] 882096009195 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 882096009196 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 882096009197 tetramer interface [polypeptide binding]; other site 882096009198 heme binding pocket [chemical binding]; other site 882096009199 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 882096009200 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 882096009201 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 882096009202 active site turn [active] 882096009203 phosphorylation site [posttranslational modification] 882096009204 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 882096009205 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 882096009206 HPr interaction site; other site 882096009207 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882096009208 active site 882096009209 phosphorylation site [posttranslational modification] 882096009210 transcriptional antiterminator BglG; Provisional; Region: PRK09772 882096009211 CAT RNA binding domain; Region: CAT_RBD; pfam03123 882096009212 PRD domain; Region: PRD; pfam00874 882096009213 PRD domain; Region: PRD; pfam00874 882096009214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4481 882096009215 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 882096009216 ParB-like nuclease domain; Region: ParB; smart00470 882096009217 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 882096009218 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 882096009219 P-loop; other site 882096009220 Magnesium ion binding site [ion binding]; other site 882096009221 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 882096009222 Magnesium ion binding site [ion binding]; other site 882096009223 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 882096009224 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 882096009225 non-specific DNA binding site [nucleotide binding]; other site 882096009226 salt bridge; other site 882096009227 sequence-specific DNA binding site [nucleotide binding]; other site 882096009228 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 882096009229 ParB-like nuclease domain; Region: ParBc; pfam02195 882096009230 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882096009231 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 882096009232 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 882096009233 putative active site [active] 882096009234 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882096009235 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882096009236 nucleotide binding site [chemical binding]; other site 882096009237 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 882096009238 active site 882096009239 phosphorylation site [posttranslational modification] 882096009240 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 882096009241 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 882096009242 motif II; other site 882096009243 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 882096009244 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 882096009245 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 882096009246 active site 882096009247 P-loop; other site 882096009248 phosphorylation site [posttranslational modification] 882096009249 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882096009250 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096009251 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 882096009252 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 882096009253 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 882096009254 putative active site cavity [active] 882096009255 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 882096009256 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 882096009257 S-adenosylmethionine binding site [chemical binding]; other site 882096009258 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 882096009259 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 882096009260 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 882096009261 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 882096009262 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 882096009263 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 882096009264 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 882096009265 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 882096009266 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 882096009267 trmE is a tRNA modification GTPase; Region: trmE; cd04164 882096009268 G1 box; other site 882096009269 GTP/Mg2+ binding site [chemical binding]; other site 882096009270 Switch I region; other site 882096009271 G2 box; other site 882096009272 Switch II region; other site 882096009273 G3 box; other site 882096009274 G4 box; other site 882096009275 G5 box; other site 882096009276 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 882096009277 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 882096009278 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 882096009279 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882096009280 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882096009281 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 882096009282 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 882096009283 NADP binding site [chemical binding]; other site 882096009284 homodimer interface [polypeptide binding]; other site 882096009285 active site 882096009286 substrate binding site [chemical binding]; other site 882096009287 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 882096009288 D-galactonate transporter; Region: 2A0114; TIGR00893 882096009289 putative substrate translocation pore; other site 882096009290 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 882096009291 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 882096009292 metal binding site [ion binding]; metal-binding site 882096009293 dimer interface [polypeptide binding]; other site 882096009294 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 882096009295 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; cl17904 882096009296 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 882096009297 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 882096009298 metal binding site [ion binding]; metal-binding site 882096009299 dimer interface [polypeptide binding]; other site 882096009300 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882096009301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882096009302 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 882096009303 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 882096009304 Leucine-rich repeats; other site 882096009305 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096009306 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096009307 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 882096009308 Substrate binding site [chemical binding]; other site 882096009309 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096009310 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096009311 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096009312 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 882096009313 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 882096009314 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 882096009315 Uncharacterized conserved protein [Function unknown]; Region: COG4198 882096009316 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 882096009317 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 882096009318 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 882096009319 putative ligand binding site [chemical binding]; other site 882096009320 putative NAD binding site [chemical binding]; other site 882096009321 putative catalytic site [active] 882096009322 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 882096009323 L-serine binding site [chemical binding]; other site 882096009324 ACT domain interface; other site 882096009325 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 882096009326 homodimer interface [polypeptide binding]; other site 882096009327 substrate-cofactor binding pocket; other site 882096009328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882096009329 catalytic residue [active] 882096009330 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 882096009331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096009332 putative substrate translocation pore; other site 882096009333 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882096009334 MarR family; Region: MarR_2; pfam12802 882096009335 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 882096009336 dimer interface [polypeptide binding]; other site 882096009337 FMN binding site [chemical binding]; other site 882096009338 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 882096009339 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 882096009340 catalytic residues [active] 882096009341 beta-phosphoglucomutase; Region: bPGM; TIGR01990 882096009342 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 882096009343 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 882096009344 motif II; other site 882096009345 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 882096009346 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 882096009347 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 882096009348 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 882096009349 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 882096009350 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882096009351 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 882096009352 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 882096009353 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 882096009354 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882096009355 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 882096009356 putative NAD(P) binding site [chemical binding]; other site 882096009357 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882096009358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096009359 dimer interface [polypeptide binding]; other site 882096009360 conserved gate region; other site 882096009361 putative PBP binding loops; other site 882096009362 ABC-ATPase subunit interface; other site 882096009363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 882096009364 dimer interface [polypeptide binding]; other site 882096009365 conserved gate region; other site 882096009366 putative PBP binding loops; other site 882096009367 ABC-ATPase subunit interface; other site 882096009368 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882096009369 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 882096009370 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 882096009371 sucrose phosphorylase; Provisional; Region: PRK13840 882096009372 active site 882096009373 homodimer interface [polypeptide binding]; other site 882096009374 catalytic site [active] 882096009375 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882096009376 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882096009377 DNA binding site [nucleotide binding] 882096009378 domain linker motif; other site 882096009379 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 882096009380 putative dimerization interface [polypeptide binding]; other site 882096009381 putative ligand binding site [chemical binding]; other site 882096009382 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 882096009383 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882096009384 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 882096009385 Coenzyme A binding pocket [chemical binding]; other site 882096009386 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 882096009387 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096009388 putative substrate translocation pore; other site 882096009389 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 882096009390 Domain of unknown function (DUF718); Region: DUF718; cl01281 882096009391 rhamnulose-1-phosphate aldolase; Region: rhamnu_1P_ald; TIGR02624 882096009392 intersubunit interface [polypeptide binding]; other site 882096009393 active site 882096009394 Zn2+ binding site [ion binding]; other site 882096009395 L-rhamnose isomerase; Provisional; Region: PRK01076 882096009396 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 882096009397 N- and C-terminal domain interface [polypeptide binding]; other site 882096009398 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 882096009399 active site 882096009400 putative catalytic site [active] 882096009401 metal binding site [ion binding]; metal-binding site 882096009402 ATP binding site [chemical binding]; other site 882096009403 carbohydrate binding site [chemical binding]; other site 882096009404 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 882096009405 putative substrate translocation pore; other site 882096009406 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882096009407 Cupin domain; Region: Cupin_2; pfam07883 882096009408 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882096009409 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 882096009410 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 882096009411 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 882096009412 G-X-X-G motif; other site 882096009413 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 882096009414 RxxxH motif; other site 882096009415 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 882096009416 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 882096009417 ribonuclease P; Reviewed; Region: rnpA; PRK00499 882096009418 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399