-- dump date 20140619_134436 -- class Genbank::misc_feature -- table misc_feature_note -- id note 879090000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 879090000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 879090000003 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 879090000004 Walker A motif; other site 879090000005 ATP binding site [chemical binding]; other site 879090000006 Walker B motif; other site 879090000007 arginine finger; other site 879090000008 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 879090000009 DnaA box-binding interface [nucleotide binding]; other site 879090000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 879090000011 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 879090000012 putative DNA binding surface [nucleotide binding]; other site 879090000013 dimer interface [polypeptide binding]; other site 879090000014 beta-clamp/clamp loader binding surface; other site 879090000015 beta-clamp/translesion DNA polymerase binding surface; other site 879090000016 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879090000017 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 879090000018 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 879090000019 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 879090000020 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 879090000021 Walker A/P-loop; other site 879090000022 ATP binding site [chemical binding]; other site 879090000023 Q-loop/lid; other site 879090000024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090000025 ABC transporter signature motif; other site 879090000026 Walker B; other site 879090000027 D-loop; other site 879090000028 H-loop/switch region; other site 879090000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 879090000030 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 879090000031 Mg2+ binding site [ion binding]; other site 879090000032 G-X-G motif; other site 879090000033 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 879090000034 anchoring element; other site 879090000035 dimer interface [polypeptide binding]; other site 879090000036 ATP binding site [chemical binding]; other site 879090000037 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 879090000038 active site 879090000039 putative metal-binding site [ion binding]; other site 879090000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 879090000041 DNA gyrase subunit A; Validated; Region: PRK05560 879090000042 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 879090000043 CAP-like domain; other site 879090000044 active site 879090000045 primary dimer interface [polypeptide binding]; other site 879090000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879090000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879090000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879090000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879090000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879090000051 cardiolipin synthetase; Reviewed; Region: PRK12452 879090000052 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 879090000053 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 879090000054 putative active site [active] 879090000055 catalytic site [active] 879090000056 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 879090000057 putative active site [active] 879090000058 catalytic site [active] 879090000059 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 879090000060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090000061 Coenzyme A binding pocket [chemical binding]; other site 879090000062 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 879090000063 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 879090000064 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 879090000065 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 879090000066 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 879090000067 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 879090000068 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 879090000069 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 879090000070 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 879090000071 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 879090000072 D-pathway; other site 879090000073 Putative ubiquinol binding site [chemical binding]; other site 879090000074 Low-spin heme (heme b) binding site [chemical binding]; other site 879090000075 Putative water exit pathway; other site 879090000076 Binuclear center (heme o3/CuB) [ion binding]; other site 879090000077 K-pathway; other site 879090000078 Putative proton exit pathway; other site 879090000079 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 879090000080 Subunit I/III interface [polypeptide binding]; other site 879090000081 Subunit III/IV interface [polypeptide binding]; other site 879090000082 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 879090000083 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 879090000084 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 879090000085 putative active site [active] 879090000086 putative metal binding site [ion binding]; other site 879090000087 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 879090000088 beta-galactosidase; Region: BGL; TIGR03356 879090000089 Bacterial SH3 domain; Region: SH3_3; pfam08239 879090000090 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 879090000091 putative active site [active] 879090000092 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090000093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090000094 DNA-binding site [nucleotide binding]; DNA binding site 879090000095 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 879090000096 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 879090000097 active site 879090000098 active pocket/dimerization site; other site 879090000099 phosphorylation site [posttranslational modification] 879090000100 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 879090000101 active site 879090000102 phosphorylation site [posttranslational modification] 879090000103 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 879090000104 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 879090000105 hypothetical protein; Provisional; Region: PRK02947 879090000106 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 879090000107 putative active site [active] 879090000108 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 879090000109 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 879090000110 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 879090000111 active site turn [active] 879090000112 phosphorylation site [posttranslational modification] 879090000113 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 879090000114 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 879090000115 HPr interaction site; other site 879090000116 glycerol kinase (GK) interaction site [polypeptide binding]; other site 879090000117 active site 879090000118 phosphorylation site [posttranslational modification] 879090000119 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 879090000120 putative dimer interface [polypeptide binding]; other site 879090000121 catalytic triad [active] 879090000122 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090000123 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090000124 Walker A/P-loop; other site 879090000125 ATP binding site [chemical binding]; other site 879090000126 Q-loop/lid; other site 879090000127 ABC transporter signature motif; other site 879090000128 Walker B; other site 879090000129 D-loop; other site 879090000130 H-loop/switch region; other site 879090000131 Protein of unknown function (DUF2705); Region: DUF2705; pfam10920 879090000132 Protein of unknown function (DUF2712); Region: DUF2712; pfam10916 879090000133 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090000134 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 879090000135 active site 879090000136 motif I; other site 879090000137 motif II; other site 879090000138 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 879090000139 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090000140 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090000141 DNA binding site [nucleotide binding] 879090000142 domain linker motif; other site 879090000143 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 879090000144 dimerization interface [polypeptide binding]; other site 879090000145 putative ligand binding site [chemical binding]; other site 879090000146 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090000147 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090000148 nucleotide binding site [chemical binding]; other site 879090000149 Butyrate kinase [Energy production and conversion]; Region: COG3426 879090000150 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 879090000151 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 879090000152 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090000153 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090000154 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 879090000155 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 879090000156 dimer interface [polypeptide binding]; other site 879090000157 active site 879090000158 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 879090000159 dimer interface [polypeptide binding]; other site 879090000160 active site 879090000161 putrescine carbamoyltransferase; Provisional; Region: PRK02255 879090000162 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 879090000163 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 879090000164 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 879090000165 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 879090000166 agmatine deiminase; Provisional; Region: PRK13551 879090000167 agmatine deiminase; Region: agmatine_aguA; TIGR03380 879090000168 carbamate kinase; Reviewed; Region: PRK12686 879090000169 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 879090000170 putative substrate binding site [chemical binding]; other site 879090000171 nucleotide binding site [chemical binding]; other site 879090000172 nucleotide binding site [chemical binding]; other site 879090000173 homodimer interface [polypeptide binding]; other site 879090000174 agmatine deiminase; Provisional; Region: PRK13551 879090000175 agmatine deiminase; Region: agmatine_aguA; TIGR03380 879090000176 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 879090000177 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 879090000178 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 879090000179 putative active site [active] 879090000180 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 879090000181 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 879090000182 arginine deiminase; Provisional; Region: PRK01388 879090000183 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 879090000184 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 879090000185 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 879090000186 dimer interface [polypeptide binding]; other site 879090000187 ssDNA binding site [nucleotide binding]; other site 879090000188 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090000189 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 879090000190 Predicted membrane protein [Function unknown]; Region: COG3212 879090000191 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 879090000192 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 879090000193 putative accessory gene regulator protein; Provisional; Region: PRK01100 879090000194 Staphylococcal AgrD protein; Region: AgrD; cl05477 879090000195 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 879090000196 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 879090000197 ATP binding site [chemical binding]; other site 879090000198 Mg2+ binding site [ion binding]; other site 879090000199 G-X-G motif; other site 879090000200 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 879090000201 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 879090000202 active site 879090000203 phosphorylation site [posttranslational modification] 879090000204 intermolecular recognition site; other site 879090000205 LytTr DNA-binding domain; Region: LytTR; pfam04397 879090000206 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 879090000207 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 879090000208 DHH family; Region: DHH; pfam01368 879090000209 DHHA1 domain; Region: DHHA1; pfam02272 879090000210 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 879090000211 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 879090000212 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 879090000213 replicative DNA helicase; Provisional; Region: PRK05748 879090000214 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 879090000215 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 879090000216 Walker A motif; other site 879090000217 ATP binding site [chemical binding]; other site 879090000218 Walker B motif; other site 879090000219 DNA binding loops [nucleotide binding] 879090000220 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 879090000221 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 879090000222 GDP-binding site [chemical binding]; other site 879090000223 ACT binding site; other site 879090000224 IMP binding site; other site 879090000225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 879090000226 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 879090000227 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 879090000228 Predicted membrane protein [Function unknown]; Region: COG1511 879090000229 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 879090000230 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 879090000231 Uncharacterized small protein [Function unknown]; Region: COG5417 879090000232 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 879090000233 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 879090000234 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 879090000235 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 879090000236 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 879090000237 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 879090000238 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 879090000239 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 879090000240 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 879090000241 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 879090000242 tetramer interface [polypeptide binding]; other site 879090000243 active site 879090000244 Mg2+/Mn2+ binding site [ion binding]; other site 879090000245 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 879090000246 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 879090000247 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 879090000248 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 879090000249 DNA binding site [nucleotide binding] 879090000250 active site 879090000251 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 879090000252 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 879090000253 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 879090000254 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 879090000255 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 879090000256 NAD binding site [chemical binding]; other site 879090000257 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 879090000258 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 879090000259 DNA binding residues [nucleotide binding] 879090000260 putative dimer interface [polypeptide binding]; other site 879090000261 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 879090000262 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090000263 active site 879090000264 catalytic tetrad [active] 879090000265 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090000266 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 879090000267 ATP synthase subunit C; Region: ATP-synt_C; cl00466 879090000268 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 879090000269 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 879090000270 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 879090000271 Walker A motif; other site 879090000272 ATP binding site [chemical binding]; other site 879090000273 Walker B motif; other site 879090000274 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 879090000275 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 879090000276 core domain interface [polypeptide binding]; other site 879090000277 delta subunit interface [polypeptide binding]; other site 879090000278 epsilon subunit interface [polypeptide binding]; other site 879090000279 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 879090000280 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 879090000281 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 879090000282 alpha subunit interaction interface [polypeptide binding]; other site 879090000283 Walker A motif; other site 879090000284 ATP binding site [chemical binding]; other site 879090000285 Walker B motif; other site 879090000286 inhibitor binding site; inhibition site 879090000287 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 879090000288 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; pfam02823 879090000289 gamma subunit interface [polypeptide binding]; other site 879090000290 epsilon subunit interface [polypeptide binding]; other site 879090000291 LBP interface [polypeptide binding]; other site 879090000292 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090000293 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 879090000294 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 879090000295 active pocket/dimerization site; other site 879090000296 active site 879090000297 phosphorylation site [posttranslational modification] 879090000298 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 879090000299 active site 879090000300 phosphorylation site [posttranslational modification] 879090000301 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 879090000302 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 879090000303 Domain of unknown function (DUF956); Region: DUF956; pfam06115 879090000304 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 879090000305 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 879090000306 dimerization interface [polypeptide binding]; other site 879090000307 putative DNA binding site [nucleotide binding]; other site 879090000308 Uncharacterized conserved protein [Function unknown]; Region: COG1359 879090000309 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 879090000310 dimer interface [polypeptide binding]; other site 879090000311 FMN binding site [chemical binding]; other site 879090000312 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 879090000313 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 879090000314 active site 879090000315 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 879090000316 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 879090000317 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 879090000318 aromatic chitin/cellulose binding site residues [chemical binding]; other site 879090000319 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090000320 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090000321 nucleotide binding site [chemical binding]; other site 879090000322 butyrate kinase; Region: butyr_kinase; TIGR02707 879090000323 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090000324 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090000325 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 879090000326 Walker A/P-loop; other site 879090000327 ATP binding site [chemical binding]; other site 879090000328 Q-loop/lid; other site 879090000329 ABC transporter signature motif; other site 879090000330 Walker B; other site 879090000331 D-loop; other site 879090000332 H-loop/switch region; other site 879090000333 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090000334 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090000335 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 879090000336 Walker A/P-loop; other site 879090000337 ATP binding site [chemical binding]; other site 879090000338 Q-loop/lid; other site 879090000339 ABC transporter signature motif; other site 879090000340 Walker B; other site 879090000341 D-loop; other site 879090000342 H-loop/switch region; other site 879090000343 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 879090000344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090000345 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 879090000346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090000347 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 879090000348 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 879090000349 substrate binding pocket [chemical binding]; other site 879090000350 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 879090000351 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090000352 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 879090000353 ligand binding site [chemical binding]; other site 879090000354 flexible hinge region; other site 879090000355 Domain of unknown function (DUF955); Region: DUF955; pfam06114 879090000356 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 879090000357 non-specific DNA binding site [nucleotide binding]; other site 879090000358 salt bridge; other site 879090000359 sequence-specific DNA binding site [nucleotide binding]; other site 879090000360 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 879090000361 Predicted secreted protein [Function unknown]; Region: COG5437 879090000362 Phage-related protein [Function unknown]; Region: COG5412 879090000363 Phage tail protein; Region: Sipho_tail; pfam05709 879090000364 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 879090000365 Predicted membrane protein [Function unknown]; Region: COG1511 879090000366 Phage-related holin (Lysis protein) [General function prediction only]; Region: COG4824 879090000367 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 879090000368 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 879090000369 active site 879090000370 metal binding site [ion binding]; metal-binding site 879090000371 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 879090000372 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 879090000373 putative active site [active] 879090000374 putative metal binding site [ion binding]; other site 879090000375 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 879090000376 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 879090000377 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 879090000378 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 879090000379 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 879090000380 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 879090000381 active site 879090000382 Uncharacterized conserved protein [Function unknown]; Region: COG3592 879090000383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090000384 Coenzyme A binding pocket [chemical binding]; other site 879090000385 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 879090000386 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 879090000387 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 879090000388 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090000389 dimer interface [polypeptide binding]; other site 879090000390 conserved gate region; other site 879090000391 putative PBP binding loops; other site 879090000392 ABC-ATPase subunit interface; other site 879090000393 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 879090000394 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 879090000395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090000396 dimer interface [polypeptide binding]; other site 879090000397 conserved gate region; other site 879090000398 putative PBP binding loops; other site 879090000399 ABC-ATPase subunit interface; other site 879090000400 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 879090000401 LXG domain of WXG superfamily; Region: LXG; pfam04740 879090000402 ATP synthase CF1 alpha subunit; Region: atpA; CHL00059 879090000403 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 879090000404 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 879090000405 peptide binding site [polypeptide binding]; other site 879090000406 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 879090000407 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 879090000408 metal binding site [ion binding]; metal-binding site 879090000409 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 879090000410 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 879090000411 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 879090000412 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 879090000413 ABC-ATPase subunit interface; other site 879090000414 dimer interface [polypeptide binding]; other site 879090000415 putative PBP binding regions; other site 879090000416 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090000417 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090000418 ligand binding site [chemical binding]; other site 879090000419 flexible hinge region; other site 879090000420 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 879090000421 DEAD_2; Region: DEAD_2; pfam06733 879090000422 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 879090000423 sugar phosphate phosphatase; Provisional; Region: PRK10513 879090000424 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 879090000425 active site 879090000426 motif I; other site 879090000427 motif II; other site 879090000428 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 879090000429 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 879090000430 Collagen binding domain; Region: Collagen_bind; pfam05737 879090000431 Cna protein B-type domain; Region: Cna_B; pfam05738 879090000432 Cna protein B-type domain; Region: Cna_B; pfam05738 879090000433 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 879090000434 Collagen binding domain; Region: Collagen_bind; pfam05737 879090000435 Cna protein B-type domain; Region: Cna_B; pfam05738 879090000436 Cna protein B-type domain; Region: Cna_B; pfam05738 879090000437 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 879090000438 DNA polymerase III subunit delta'; Validated; Region: PRK08058 879090000439 DNA polymerase III subunit delta'; Validated; Region: PRK08485 879090000440 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 879090000441 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467 879090000442 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 879090000443 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 879090000444 S-adenosylmethionine binding site [chemical binding]; other site 879090000445 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 879090000446 GIY-YIG motif/motif A; other site 879090000447 putative active site [active] 879090000448 putative metal binding site [ion binding]; other site 879090000449 Predicted methyltransferases [General function prediction only]; Region: COG0313 879090000450 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 879090000451 putative SAM binding site [chemical binding]; other site 879090000452 putative homodimer interface [polypeptide binding]; other site 879090000453 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 879090000454 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 879090000455 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 879090000456 Uncharacterized conserved protein [Function unknown]; Region: COG5361 879090000457 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 879090000458 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 879090000459 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879090000460 Leucine rich repeat; Region: LRR_8; pfam13855 879090000461 LRR adjacent; Region: LRR_adjacent; pfam08191 879090000462 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090000463 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090000464 Integrase core domain; Region: rve; pfam00665 879090000465 Integrase core domain; Region: rve_3; cl15866 879090000466 Homeodomain-like domain; Region: HTH_23; pfam13384 879090000467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 879090000468 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 879090000469 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090000470 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 879090000471 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 879090000472 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 879090000473 active site 879090000474 HIGH motif; other site 879090000475 KMSKS motif; other site 879090000476 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 879090000477 tRNA binding surface [nucleotide binding]; other site 879090000478 anticodon binding site; other site 879090000479 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 879090000480 dimer interface [polypeptide binding]; other site 879090000481 putative tRNA-binding site [nucleotide binding]; other site 879090000482 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 879090000483 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090000484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090000485 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 879090000486 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 879090000487 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090000488 dimer interface [polypeptide binding]; other site 879090000489 conserved gate region; other site 879090000490 putative PBP binding loops; other site 879090000491 ABC-ATPase subunit interface; other site 879090000492 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 879090000493 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090000494 dimer interface [polypeptide binding]; other site 879090000495 conserved gate region; other site 879090000496 putative PBP binding loops; other site 879090000497 ABC-ATPase subunit interface; other site 879090000498 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 879090000499 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 879090000500 alpha-glucosidase; Provisional; Region: PRK10426 879090000501 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 879090000502 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 879090000503 active site 879090000504 catalytic site [active] 879090000505 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 879090000506 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 879090000507 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 879090000508 trimer interface [polypeptide binding]; other site 879090000509 active site 879090000510 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 879090000511 catalytic site [active] 879090000512 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 879090000513 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 879090000514 Ca binding site [ion binding]; other site 879090000515 active site 879090000516 catalytic site [active] 879090000517 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 879090000518 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 879090000519 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 879090000520 active site 879090000521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 879090000522 Domain of unknown function (DUF348); Region: DUF348; pfam03990 879090000523 Domain of unknown function (DUF348); Region: DUF348; pfam03990 879090000524 G5 domain; Region: G5; pfam07501 879090000525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 879090000526 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 879090000527 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 879090000528 putative active site [active] 879090000529 putative metal binding site [ion binding]; other site 879090000530 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 879090000531 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 879090000532 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 879090000533 S-adenosylmethionine binding site [chemical binding]; other site 879090000534 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 879090000535 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 879090000536 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 879090000537 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 879090000538 putative active site [active] 879090000539 YdjC motif; other site 879090000540 Mg binding site [ion binding]; other site 879090000541 putative homodimer interface [polypeptide binding]; other site 879090000542 pur operon repressor; Provisional; Region: PRK09213 879090000543 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 879090000544 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090000545 active site 879090000546 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 879090000547 HlyD family secretion protein; Region: HlyD_3; pfam13437 879090000548 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090000549 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090000550 Walker A/P-loop; other site 879090000551 ATP binding site [chemical binding]; other site 879090000552 Q-loop/lid; other site 879090000553 ABC transporter signature motif; other site 879090000554 Walker B; other site 879090000555 D-loop; other site 879090000556 H-loop/switch region; other site 879090000557 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879090000558 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 879090000559 FtsX-like permease family; Region: FtsX; pfam02687 879090000560 regulatory protein SpoVG; Reviewed; Region: PRK13259 879090000561 regulatory protein SpoVG; Reviewed; Region: PRK13259 879090000562 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 879090000563 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 879090000564 Substrate binding site; other site 879090000565 Mg++ binding site; other site 879090000566 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 879090000567 active site 879090000568 substrate binding site [chemical binding]; other site 879090000569 CoA binding site [chemical binding]; other site 879090000570 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 879090000571 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 879090000572 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090000573 active site 879090000574 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090000575 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090000576 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 879090000577 Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C; Region: PI-PLCc; cd00137 879090000578 active site 879090000579 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 879090000580 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 879090000581 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 879090000582 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 879090000583 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 879090000584 active site 879090000585 Zn binding site [ion binding]; other site 879090000586 ActA Protein; Region: ActA; pfam05058 879090000587 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 879090000588 Zn binding site [ion binding]; other site 879090000589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 879090000590 hypothetical protein; Provisional; Region: PRK01119 879090000591 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 879090000592 A new structural DNA glycosylase; Region: AlkD_like; cd06561 879090000593 active site 879090000594 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 879090000595 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 879090000596 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090000597 NAD binding site [chemical binding]; other site 879090000598 dimer interface [polypeptide binding]; other site 879090000599 substrate binding site [chemical binding]; other site 879090000600 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 879090000601 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 879090000602 5S rRNA interface [nucleotide binding]; other site 879090000603 CTC domain interface [polypeptide binding]; other site 879090000604 L16 interface [polypeptide binding]; other site 879090000605 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 879090000606 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090000607 Coenzyme A binding pocket [chemical binding]; other site 879090000608 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 879090000609 putative active site [active] 879090000610 catalytic residue [active] 879090000611 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 879090000612 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 879090000613 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 879090000614 ATP binding site [chemical binding]; other site 879090000615 putative Mg++ binding site [ion binding]; other site 879090000616 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 879090000617 nucleotide binding region [chemical binding]; other site 879090000618 ATP-binding site [chemical binding]; other site 879090000619 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 879090000620 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 879090000621 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 879090000622 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 879090000623 RNA binding surface [nucleotide binding]; other site 879090000624 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 879090000625 Septum formation initiator; Region: DivIC; pfam04977 879090000626 hypothetical protein; Provisional; Region: PRK08582 879090000627 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 879090000628 RNA binding site [nucleotide binding]; other site 879090000629 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 879090000630 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 879090000631 Ligand Binding Site [chemical binding]; other site 879090000632 TilS substrate C-terminal domain; Region: TilS_C; smart00977 879090000633 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 879090000634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090000635 active site 879090000636 FtsH Extracellular; Region: FtsH_ext; pfam06480 879090000637 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 879090000638 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 879090000639 Walker A motif; other site 879090000640 ATP binding site [chemical binding]; other site 879090000641 Walker B motif; other site 879090000642 arginine finger; other site 879090000643 Peptidase family M41; Region: Peptidase_M41; pfam01434 879090000644 pantothenate kinase; Reviewed; Region: PRK13318 879090000645 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 879090000646 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 879090000647 dimerization interface [polypeptide binding]; other site 879090000648 domain crossover interface; other site 879090000649 redox-dependent activation switch; other site 879090000650 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 879090000651 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 879090000652 dimer interface [polypeptide binding]; other site 879090000653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090000654 catalytic residue [active] 879090000655 dihydropteroate synthase; Region: DHPS; TIGR01496 879090000656 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 879090000657 substrate binding pocket [chemical binding]; other site 879090000658 dimer interface [polypeptide binding]; other site 879090000659 inhibitor binding site; inhibition site 879090000660 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 879090000661 homooctamer interface [polypeptide binding]; other site 879090000662 active site 879090000663 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 879090000664 catalytic center binding site [active] 879090000665 ATP binding site [chemical binding]; other site 879090000666 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 879090000667 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 879090000668 FMN binding site [chemical binding]; other site 879090000669 active site 879090000670 catalytic residues [active] 879090000671 substrate binding site [chemical binding]; other site 879090000672 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 879090000673 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 879090000674 dimer interface [polypeptide binding]; other site 879090000675 putative anticodon binding site; other site 879090000676 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 879090000677 motif 1; other site 879090000678 active site 879090000679 motif 2; other site 879090000680 motif 3; other site 879090000681 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 879090000682 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 879090000683 UvrB/uvrC motif; Region: UVR; pfam02151 879090000684 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 879090000685 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 879090000686 ADP binding site [chemical binding]; other site 879090000687 phosphagen binding site; other site 879090000688 substrate specificity loop; other site 879090000689 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 879090000690 Clp amino terminal domain; Region: Clp_N; pfam02861 879090000691 Clp amino terminal domain; Region: Clp_N; pfam02861 879090000692 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 879090000693 Walker A motif; other site 879090000694 ATP binding site [chemical binding]; other site 879090000695 Walker B motif; other site 879090000696 arginine finger; other site 879090000697 UvrB/uvrC motif; Region: UVR; pfam02151 879090000698 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 879090000699 Walker A motif; other site 879090000700 ATP binding site [chemical binding]; other site 879090000701 Walker B motif; other site 879090000702 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 879090000703 DNA repair protein RadA; Provisional; Region: PRK11823 879090000704 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 879090000705 Walker A motif/ATP binding site; other site 879090000706 ATP binding site [chemical binding]; other site 879090000707 Walker B motif; other site 879090000708 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 879090000709 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 879090000710 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 879090000711 putative active site [active] 879090000712 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 879090000713 substrate binding site; other site 879090000714 dimer interface; other site 879090000715 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 879090000716 homotrimer interaction site [polypeptide binding]; other site 879090000717 zinc binding site [ion binding]; other site 879090000718 CDP-binding sites; other site 879090000719 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 879090000720 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 879090000721 HIGH motif; other site 879090000722 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 879090000723 active site 879090000724 KMSKS motif; other site 879090000725 serine O-acetyltransferase; Region: cysE; TIGR01172 879090000726 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 879090000727 trimer interface [polypeptide binding]; other site 879090000728 active site 879090000729 substrate binding site [chemical binding]; other site 879090000730 CoA binding site [chemical binding]; other site 879090000731 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 879090000732 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 879090000733 active site 879090000734 HIGH motif; other site 879090000735 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 879090000736 KMSKS motif; other site 879090000737 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 879090000738 tRNA binding surface [nucleotide binding]; other site 879090000739 anticodon binding site; other site 879090000740 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 879090000741 active site 879090000742 metal binding site [ion binding]; metal-binding site 879090000743 dimerization interface [polypeptide binding]; other site 879090000744 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 879090000745 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 879090000746 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 879090000747 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 879090000748 RNA polymerase factor sigma-70; Validated; Region: PRK08295 879090000749 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879090000750 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 879090000751 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 879090000752 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 879090000753 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 879090000754 putative homodimer interface [polypeptide binding]; other site 879090000755 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 879090000756 heterodimer interface [polypeptide binding]; other site 879090000757 homodimer interface [polypeptide binding]; other site 879090000758 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 879090000759 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 879090000760 23S rRNA interface [nucleotide binding]; other site 879090000761 L7/L12 interface [polypeptide binding]; other site 879090000762 putative thiostrepton binding site; other site 879090000763 L25 interface [polypeptide binding]; other site 879090000764 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 879090000765 mRNA/rRNA interface [nucleotide binding]; other site 879090000766 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 879090000767 23S rRNA interface [nucleotide binding]; other site 879090000768 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 879090000769 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 879090000770 core dimer interface [polypeptide binding]; other site 879090000771 peripheral dimer interface [polypeptide binding]; other site 879090000772 L10 interface [polypeptide binding]; other site 879090000773 L11 interface [polypeptide binding]; other site 879090000774 putative EF-Tu interaction site [polypeptide binding]; other site 879090000775 putative EF-G interaction site [polypeptide binding]; other site 879090000776 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 879090000777 Methyltransferase domain; Region: Methyltransf_31; pfam13847 879090000778 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 879090000779 S-adenosylmethionine binding site [chemical binding]; other site 879090000780 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 879090000781 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 879090000782 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 879090000783 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 879090000784 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 879090000785 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 879090000786 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 879090000787 RPB10 interaction site [polypeptide binding]; other site 879090000788 RPB1 interaction site [polypeptide binding]; other site 879090000789 RPB11 interaction site [polypeptide binding]; other site 879090000790 RPB3 interaction site [polypeptide binding]; other site 879090000791 RPB12 interaction site [polypeptide binding]; other site 879090000792 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 879090000793 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 879090000794 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 879090000795 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 879090000796 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 879090000797 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 879090000798 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 879090000799 G-loop; other site 879090000800 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 879090000801 DNA binding site [nucleotide binding] 879090000802 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 879090000803 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 879090000804 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 879090000805 active site 879090000806 motif I; other site 879090000807 motif II; other site 879090000808 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090000809 beta-galactosidase; Region: BGL; TIGR03356 879090000810 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090000811 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 879090000812 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000813 Substrate binding site [chemical binding]; other site 879090000814 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000815 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000816 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000817 LRR adjacent; Region: LRR_adjacent; pfam08191 879090000818 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090000819 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090000820 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090000821 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090000822 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 879090000823 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000824 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000825 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000826 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000827 LRR adjacent; Region: LRR_adjacent; pfam08191 879090000828 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090000829 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090000830 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090000831 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 879090000832 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000833 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000834 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000835 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000836 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000837 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000838 LRR adjacent; Region: LRR_adjacent; pfam08191 879090000839 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090000840 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090000841 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090000842 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000843 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000844 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000845 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000846 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090000847 LRR adjacent; Region: LRR_adjacent; pfam08191 879090000848 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090000849 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090000850 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 879090000851 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 879090000852 metal binding site [ion binding]; metal-binding site 879090000853 dimer interface [polypeptide binding]; other site 879090000854 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879090000855 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 879090000856 putative Zn2+ binding site [ion binding]; other site 879090000857 putative DNA binding site [nucleotide binding]; other site 879090000858 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 879090000859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090000860 Zn binding site [ion binding]; other site 879090000861 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 879090000862 Zn binding site [ion binding]; other site 879090000863 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 879090000864 catalytic core [active] 879090000865 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 879090000866 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090000867 dimer interface [polypeptide binding]; other site 879090000868 conserved gate region; other site 879090000869 putative PBP binding loops; other site 879090000870 ABC-ATPase subunit interface; other site 879090000871 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 879090000872 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090000873 dimer interface [polypeptide binding]; other site 879090000874 conserved gate region; other site 879090000875 ABC-ATPase subunit interface; other site 879090000876 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 879090000877 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090000878 beta-galactosidase; Region: BGL; TIGR03356 879090000879 sugar phosphate phosphatase; Provisional; Region: PRK10513 879090000880 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 879090000881 active site 879090000882 motif I; other site 879090000883 motif II; other site 879090000884 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 879090000885 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090000886 Coenzyme A binding pocket [chemical binding]; other site 879090000887 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090000888 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090000889 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 879090000890 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 879090000891 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 879090000892 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 879090000893 active site 879090000894 motif I; other site 879090000895 motif II; other site 879090000896 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 879090000897 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879090000898 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090000899 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 879090000900 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 879090000901 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 879090000902 Walker A/P-loop; other site 879090000903 ATP binding site [chemical binding]; other site 879090000904 Q-loop/lid; other site 879090000905 ABC transporter signature motif; other site 879090000906 Walker B; other site 879090000907 D-loop; other site 879090000908 H-loop/switch region; other site 879090000909 TOBE domain; Region: TOBE; pfam03459 879090000910 ATP cone domain; Region: ATP-cone; pfam03477 879090000911 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 879090000912 Class III ribonucleotide reductase; Region: RNR_III; cd01675 879090000913 effector binding site; other site 879090000914 active site 879090000915 Zn binding site [ion binding]; other site 879090000916 glycine loop; other site 879090000917 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 879090000918 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 879090000919 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090000920 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090000921 ligand binding site [chemical binding]; other site 879090000922 flexible hinge region; other site 879090000923 Predicted amidohydrolase [General function prediction only]; Region: COG0388 879090000924 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 879090000925 putative active site [active] 879090000926 catalytic triad [active] 879090000927 putative dimer interface [polypeptide binding]; other site 879090000928 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090000929 dimer interface [polypeptide binding]; other site 879090000930 conserved gate region; other site 879090000931 ABC-ATPase subunit interface; other site 879090000932 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 879090000933 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 879090000934 Walker A/P-loop; other site 879090000935 ATP binding site [chemical binding]; other site 879090000936 Q-loop/lid; other site 879090000937 ABC transporter signature motif; other site 879090000938 Walker B; other site 879090000939 D-loop; other site 879090000940 H-loop/switch region; other site 879090000941 NIL domain; Region: NIL; pfam09383 879090000942 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 879090000943 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 879090000944 transaminase; Reviewed; Region: PRK08068 879090000945 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 879090000946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090000947 homodimer interface [polypeptide binding]; other site 879090000948 catalytic residue [active] 879090000949 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090000950 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 879090000951 active site 879090000952 phosphorylation site [posttranslational modification] 879090000953 intermolecular recognition site; other site 879090000954 dimerization interface [polypeptide binding]; other site 879090000955 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 879090000956 DNA binding site [nucleotide binding] 879090000957 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 879090000958 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 879090000959 dimerization interface [polypeptide binding]; other site 879090000960 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 879090000961 putative active site [active] 879090000962 heme pocket [chemical binding]; other site 879090000963 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 879090000964 dimer interface [polypeptide binding]; other site 879090000965 phosphorylation site [posttranslational modification] 879090000966 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 879090000967 ATP binding site [chemical binding]; other site 879090000968 Mg2+ binding site [ion binding]; other site 879090000969 G-X-G motif; other site 879090000970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 879090000971 YycH protein; Region: YycH; pfam07435 879090000972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4853 879090000973 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 879090000974 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 879090000975 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 879090000976 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879090000977 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 879090000978 protein binding site [polypeptide binding]; other site 879090000979 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 879090000980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090000981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090000982 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 879090000983 dimerization interface [polypeptide binding]; other site 879090000984 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 879090000985 dimer interface [polypeptide binding]; other site 879090000986 FMN binding site [chemical binding]; other site 879090000987 NADPH bind site [chemical binding]; other site 879090000988 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090000989 HTH domain; Region: HTH_11; pfam08279 879090000990 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090000991 PRD domain; Region: PRD; pfam00874 879090000992 PRD domain; Region: PRD; pfam00874 879090000993 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 879090000994 active site 879090000995 P-loop; other site 879090000996 phosphorylation site [posttranslational modification] 879090000997 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 879090000998 active site 879090000999 phosphorylation site [posttranslational modification] 879090001000 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090001001 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090001002 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 879090001003 active site 879090001004 P-loop; other site 879090001005 phosphorylation site [posttranslational modification] 879090001006 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090001007 beta-galactosidase; Region: BGL; TIGR03356 879090001008 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 879090001009 methionine cluster; other site 879090001010 active site 879090001011 phosphorylation site [posttranslational modification] 879090001012 metal binding site [ion binding]; metal-binding site 879090001013 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 879090001014 ATP binding site [chemical binding]; other site 879090001015 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 879090001016 AAA domain; Region: AAA_30; pfam13604 879090001017 AAA domain; Region: AAA_12; pfam13087 879090001018 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 879090001019 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 879090001020 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 879090001021 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 879090001022 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879090001023 catalytic residue [active] 879090001024 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 879090001025 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 879090001026 cofactor binding site; other site 879090001027 DNA binding site [nucleotide binding] 879090001028 substrate interaction site [chemical binding]; other site 879090001029 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 879090001030 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 879090001031 putative active site [active] 879090001032 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 879090001033 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_1; cd10805 879090001034 putative active site [active] 879090001035 YdjC motif; other site 879090001036 Mg binding site [ion binding]; other site 879090001037 putative homodimer interface [polypeptide binding]; other site 879090001038 Putative transcription activator [Transcription]; Region: TenA; COG0819 879090001039 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 879090001040 substrate binding site [chemical binding]; other site 879090001041 multimerization interface [polypeptide binding]; other site 879090001042 ATP binding site [chemical binding]; other site 879090001043 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 879090001044 dimer interface [polypeptide binding]; other site 879090001045 substrate binding site [chemical binding]; other site 879090001046 ATP binding site [chemical binding]; other site 879090001047 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 879090001048 thiamine phosphate binding site [chemical binding]; other site 879090001049 active site 879090001050 pyrophosphate binding site [ion binding]; other site 879090001051 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090001052 beta-galactosidase; Region: BGL; TIGR03356 879090001053 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090001054 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 879090001055 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 879090001056 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 879090001057 putative catalytic site [active] 879090001058 putative metal binding site [ion binding]; other site 879090001059 putative phosphate binding site [ion binding]; other site 879090001060 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 879090001061 non-specific DNA binding site [nucleotide binding]; other site 879090001062 salt bridge; other site 879090001063 sequence-specific DNA binding site [nucleotide binding]; other site 879090001064 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 879090001065 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 879090001066 non-specific DNA binding site [nucleotide binding]; other site 879090001067 salt bridge; other site 879090001068 sequence-specific DNA binding site [nucleotide binding]; other site 879090001069 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 879090001070 Leucine rich repeat; Region: LRR_8; pfam13855 879090001071 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001072 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001073 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001074 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001075 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001076 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001077 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001078 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001079 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001080 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001081 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001082 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001083 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001084 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001085 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001086 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879090001087 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090001088 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 879090001089 Leucine-rich repeats; other site 879090001090 Substrate binding site [chemical binding]; other site 879090001091 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001092 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001093 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001094 Leucine rich repeat; Region: LRR_8; pfam13855 879090001095 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 879090001096 Leucine-rich repeats; other site 879090001097 Substrate binding site [chemical binding]; other site 879090001098 Leucine rich repeat; Region: LRR_8; pfam13855 879090001099 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001100 Leucine rich repeat; Region: LRR_8; pfam13855 879090001101 Leucine rich repeat; Region: LRR_8; pfam13855 879090001102 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001103 LRR adjacent; Region: LRR_adjacent; pfam08191 879090001104 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001105 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001106 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001107 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 879090001108 Protein of unknown function (DUF3130; Region: DUF3130; pfam11328 879090001109 LXG domain of WXG superfamily; Region: LXG; pfam04740 879090001110 Inorganic pyrophosphatase [Energy production and conversion]; Region: Ppa; COG0221 879090001111 Enterocin A Immunity; Region: EntA_Immun; pfam08951 879090001112 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 879090001113 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 879090001114 TPP-binding site [chemical binding]; other site 879090001115 dimer interface [polypeptide binding]; other site 879090001116 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 879090001117 PYR/PP interface [polypeptide binding]; other site 879090001118 dimer interface [polypeptide binding]; other site 879090001119 TPP binding site [chemical binding]; other site 879090001120 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879090001121 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 879090001122 active site 879090001123 intersubunit interactions; other site 879090001124 catalytic residue [active] 879090001125 short chain dehydrogenase; Provisional; Region: PRK06841 879090001126 classical (c) SDRs; Region: SDR_c; cd05233 879090001127 NAD(P) binding site [chemical binding]; other site 879090001128 active site 879090001129 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 879090001130 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 879090001131 substrate binding site [chemical binding]; other site 879090001132 dimer interface [polypeptide binding]; other site 879090001133 catalytic triad [active] 879090001134 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 879090001135 DAK2 domain; Region: Dak2; cl03685 879090001136 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 879090001137 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 879090001138 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 879090001139 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 879090001140 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 879090001141 putative DNA binding site [nucleotide binding]; other site 879090001142 putative Zn2+ binding site [ion binding]; other site 879090001143 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 879090001144 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090001145 Coenzyme A binding pocket [chemical binding]; other site 879090001146 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 879090001147 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 879090001148 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 879090001149 acyl-activating enzyme (AAE) consensus motif; other site 879090001150 acyl-activating enzyme (AAE) consensus motif; other site 879090001151 AMP binding site [chemical binding]; other site 879090001152 active site 879090001153 CoA binding site [chemical binding]; other site 879090001154 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 879090001155 L-aspartate oxidase; Provisional; Region: PRK06175 879090001156 putative oxidoreductase; Provisional; Region: PRK10206 879090001157 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090001158 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 879090001159 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 879090001160 active site 879090001161 phosphorylation site [posttranslational modification] 879090001162 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 879090001163 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 879090001164 active site 879090001165 P-loop; other site 879090001166 phosphorylation site [posttranslational modification] 879090001167 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 879090001168 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 879090001169 intersubunit interface [polypeptide binding]; other site 879090001170 active site 879090001171 zinc binding site [ion binding]; other site 879090001172 Na+ binding site [ion binding]; other site 879090001173 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 879090001174 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 879090001175 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 879090001176 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 879090001177 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 879090001178 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 879090001179 conserved cys residue [active] 879090001180 Predicted transcriptional regulator [Transcription]; Region: COG2378 879090001181 HTH domain; Region: HTH_11; pfam08279 879090001182 WYL domain; Region: WYL; pfam13280 879090001183 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 879090001184 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 879090001185 Imelysin; Region: Peptidase_M75; pfam09375 879090001186 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 879090001187 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 879090001188 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 879090001189 nudix motif; other site 879090001190 hypothetical protein; Provisional; Region: PRK12378 879090001191 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 879090001192 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 879090001193 PhnA protein; Region: PhnA; pfam03831 879090001194 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090001195 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090001196 DNA-binding site [nucleotide binding]; DNA binding site 879090001197 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 879090001198 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090001199 beta-galactosidase; Region: BGL; TIGR03356 879090001200 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090001201 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 879090001202 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 879090001203 active site 879090001204 P-loop; other site 879090001205 phosphorylation site [posttranslational modification] 879090001206 Predicted transcriptional regulator [Transcription]; Region: COG2378 879090001207 HTH domain; Region: HTH_11; pfam08279 879090001208 WYL domain; Region: WYL; pfam13280 879090001209 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 879090001210 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 879090001211 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 879090001212 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 879090001213 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 879090001214 tetrameric interface [polypeptide binding]; other site 879090001215 NAD binding site [chemical binding]; other site 879090001216 catalytic residues [active] 879090001217 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 879090001218 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 879090001219 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 879090001220 substrate binding site [chemical binding]; other site 879090001221 ATP binding site [chemical binding]; other site 879090001222 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 879090001223 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 879090001224 PYR/PP interface [polypeptide binding]; other site 879090001225 dimer interface [polypeptide binding]; other site 879090001226 TPP binding site [chemical binding]; other site 879090001227 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 879090001228 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 879090001229 TPP-binding site; other site 879090001230 Uncharacterized conserved protein [Function unknown]; Region: COG5646 879090001231 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 879090001232 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 879090001233 ligand binding site [chemical binding]; other site 879090001234 active site 879090001235 UGI interface [polypeptide binding]; other site 879090001236 catalytic site [active] 879090001237 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 879090001238 hypothetical protein; Provisional; Region: PRK13665 879090001239 Bacterial SH3 domain; Region: SH3_3; cl17532 879090001240 NlpC/P60 family; Region: NLPC_P60; pfam00877 879090001241 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 879090001242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090001243 Coenzyme A binding pocket [chemical binding]; other site 879090001244 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 879090001245 pyrroline-5-carboxylate reductase; Region: PLN02688 879090001246 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 879090001247 putative hydrophobic ligand binding site [chemical binding]; other site 879090001248 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 879090001249 active site 879090001250 phosphorylation site [posttranslational modification] 879090001251 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 879090001252 active site 879090001253 P-loop; other site 879090001254 phosphorylation site [posttranslational modification] 879090001255 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 879090001256 alpha-mannosidase; Provisional; Region: PRK09819 879090001257 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 879090001258 active site 879090001259 metal binding site [ion binding]; metal-binding site 879090001260 catalytic site [active] 879090001261 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 879090001262 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090001263 HTH domain; Region: HTH_11; pfam08279 879090001264 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090001265 PRD domain; Region: PRD; pfam00874 879090001266 PRD domain; Region: PRD; pfam00874 879090001267 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 879090001268 active site 879090001269 P-loop; other site 879090001270 phosphorylation site [posttranslational modification] 879090001271 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 879090001272 active site 879090001273 phosphorylation site [posttranslational modification] 879090001274 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 879090001275 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 879090001276 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090001277 putative metal binding site [ion binding]; other site 879090001278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 879090001279 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 879090001280 trimer interface [polypeptide binding]; other site 879090001281 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090001282 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879090001283 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 879090001284 Leucine-rich repeats; other site 879090001285 Substrate binding site [chemical binding]; other site 879090001286 LRR adjacent; Region: LRR_adjacent; pfam08191 879090001287 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090001288 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090001289 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090001290 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090001291 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090001292 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 879090001293 phosphoenolpyruvate synthase; Validated; Region: PRK06241 879090001294 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 879090001295 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 879090001296 ZIP Zinc transporter; Region: Zip; pfam02535 879090001297 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 879090001298 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 879090001299 NodB motif; other site 879090001300 active site 879090001301 catalytic site [active] 879090001302 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 879090001303 non-specific DNA binding site [nucleotide binding]; other site 879090001304 salt bridge; other site 879090001305 sequence-specific DNA binding site [nucleotide binding]; other site 879090001306 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 879090001307 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 879090001308 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 879090001309 active site 879090001310 motif I; other site 879090001311 motif II; other site 879090001312 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 879090001313 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 879090001314 lineage-specific thermal regulator protein; Provisional; Region: lstR; PRK09416 879090001315 Predicted transcriptional regulators [Transcription]; Region: COG1695 879090001316 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 879090001317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879090001318 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 879090001319 DNA binding residues [nucleotide binding] 879090001320 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 879090001321 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090001322 HTH domain; Region: HTH_11; pfam08279 879090001323 PRD domain; Region: PRD; pfam00874 879090001324 PRD domain; Region: PRD; pfam00874 879090001325 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 879090001326 active site 879090001327 P-loop; other site 879090001328 phosphorylation site [posttranslational modification] 879090001329 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 879090001330 active site 879090001331 phosphorylation site [posttranslational modification] 879090001332 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 879090001333 active site 879090001334 phosphorylation site [posttranslational modification] 879090001335 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 879090001336 active site 879090001337 P-loop; other site 879090001338 phosphorylation site [posttranslational modification] 879090001339 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 879090001340 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 879090001341 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 879090001342 active site 879090001343 metal binding site [ion binding]; metal-binding site 879090001344 catalytic site [active] 879090001345 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 879090001346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090001347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090001348 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 879090001349 dimerization interface [polypeptide binding]; other site 879090001350 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 879090001351 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 879090001352 active site 879090001353 substrate binding site [chemical binding]; other site 879090001354 trimer interface [polypeptide binding]; other site 879090001355 CoA binding site [chemical binding]; other site 879090001356 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 879090001357 classical (c) SDRs; Region: SDR_c; cd05233 879090001358 NAD(P) binding site [chemical binding]; other site 879090001359 active site 879090001360 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090001361 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001362 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 879090001363 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001364 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001365 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001366 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001367 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001368 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001369 LRR adjacent; Region: LRR_adjacent; pfam08191 879090001370 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090001371 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090001372 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 879090001373 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090001374 Leucine rich repeat; Region: LRR_8; pfam13855 879090001375 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 879090001376 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001377 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001378 LRR adjacent; Region: LRR_adjacent; pfam08191 879090001379 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 879090001380 SH3-like domain; Region: SH3_8; pfam13457 879090001381 Predicted transcriptional regulator [Transcription]; Region: COG1959 879090001382 Transcriptional regulator; Region: Rrf2; pfam02082 879090001383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879090001384 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 879090001385 NAD(P) binding site [chemical binding]; other site 879090001386 active site 879090001387 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 879090001388 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 879090001389 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 879090001390 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 879090001391 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 879090001392 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 879090001393 Transcriptional regulator [Transcription]; Region: LytR; COG1316 879090001394 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 879090001395 Signal peptide peptidase; Region: Peptidase_A22B; cl01342 879090001396 Predicted membrane protein [Function unknown]; Region: COG3619 879090001397 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 879090001398 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 879090001399 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 879090001400 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 879090001401 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 879090001402 Protein of unknown function DUF58; Region: DUF58; pfam01882 879090001403 MoxR-like ATPases [General function prediction only]; Region: COG0714 879090001404 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 879090001405 Walker A motif; other site 879090001406 ATP binding site [chemical binding]; other site 879090001407 Walker B motif; other site 879090001408 arginine finger; other site 879090001409 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 879090001410 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 879090001411 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 879090001412 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 879090001413 Na binding site [ion binding]; other site 879090001414 Uncharacterized conserved protein [Function unknown]; Region: COG3535 879090001415 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 879090001416 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090001417 nucleotide binding site [chemical binding]; other site 879090001418 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 879090001419 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 879090001420 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090001421 Zn2+ binding site [ion binding]; other site 879090001422 Mg2+ binding site [ion binding]; other site 879090001423 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 879090001424 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 879090001425 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 879090001426 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 879090001427 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090001428 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 879090001429 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 879090001430 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 879090001431 FeS/SAM binding site; other site 879090001432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 879090001433 heme-degrading monooxygenase IsdG; Provisional; Region: PRK13316 879090001434 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 879090001435 putative FMN binding site [chemical binding]; other site 879090001436 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 879090001437 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 879090001438 nudix motif; other site 879090001439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090001440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090001441 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 879090001442 putative dimerization interface [polypeptide binding]; other site 879090001443 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 879090001444 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 879090001445 active site 879090001446 FMN binding site [chemical binding]; other site 879090001447 substrate binding site [chemical binding]; other site 879090001448 putative catalytic residue [active] 879090001449 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 879090001450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090001451 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090001452 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 879090001453 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 879090001454 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 879090001455 shikimate binding site; other site 879090001456 NAD(P) binding site [chemical binding]; other site 879090001457 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 879090001458 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 879090001459 active site 879090001460 catalytic residue [active] 879090001461 dimer interface [polypeptide binding]; other site 879090001462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090001463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090001464 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 879090001465 dimerization interface [polypeptide binding]; other site 879090001466 substrate binding pocket [chemical binding]; other site 879090001467 Predicted acyl esterases [General function prediction only]; Region: COG2936 879090001468 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 879090001469 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 879090001470 active site 879090001471 catalytic triad [active] 879090001472 oxyanion hole [active] 879090001473 EamA-like transporter family; Region: EamA; pfam00892 879090001474 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 879090001475 EamA-like transporter family; Region: EamA; pfam00892 879090001476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 879090001477 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 879090001478 active site 879090001479 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 879090001480 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 879090001481 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 879090001482 substrate binding site [chemical binding]; other site 879090001483 hexamer interface [polypeptide binding]; other site 879090001484 metal binding site [ion binding]; metal-binding site 879090001485 Transaldolase [Carbohydrate transport and metabolism]; Region: MipB; COG0176 879090001486 catalytic residue [active] 879090001487 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090001488 PRD domain; Region: PRD; pfam00874 879090001489 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 879090001490 active site 879090001491 P-loop; other site 879090001492 phosphorylation site [posttranslational modification] 879090001493 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 879090001494 active site 879090001495 phosphorylation site [posttranslational modification] 879090001496 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 879090001497 putative active site [active] 879090001498 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 879090001499 active site 879090001500 phosphorylation site [posttranslational modification] 879090001501 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 879090001502 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 879090001503 substrate binding site [chemical binding]; other site 879090001504 hexamer interface [polypeptide binding]; other site 879090001505 metal binding site [ion binding]; metal-binding site 879090001506 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 879090001507 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 879090001508 putative NAD(P) binding site [chemical binding]; other site 879090001509 catalytic Zn binding site [ion binding]; other site 879090001510 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 879090001511 active site 879090001512 P-loop; other site 879090001513 phosphorylation site [posttranslational modification] 879090001514 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 879090001515 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 879090001516 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 879090001517 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 879090001518 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090001519 active site 879090001520 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 879090001521 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 879090001522 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 879090001523 catalytic triad [active] 879090001524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 879090001525 Homeodomain-like domain; Region: HTH_23; pfam13384 879090001526 putative transposase OrfB; Reviewed; Region: PHA02517 879090001527 HTH-like domain; Region: HTH_21; pfam13276 879090001528 Integrase core domain; Region: rve; pfam00665 879090001529 Integrase core domain; Region: rve_3; cl15866 879090001530 conserved hypothetical protein; Region: lin0512_fam; TIGR02058 879090001531 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879090001532 MarR family; Region: MarR_2; pfam12802 879090001533 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001534 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090001535 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 879090001536 Ligand Binding Site [chemical binding]; other site 879090001537 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 879090001538 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 879090001539 putative active site [active] 879090001540 putative metal binding site [ion binding]; other site 879090001541 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 879090001542 catalytic core [active] 879090001543 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 879090001544 Predicted membrane protein [Function unknown]; Region: COG3759 879090001545 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 879090001546 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090001547 putative substrate translocation pore; other site 879090001548 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 879090001549 non-specific DNA interactions [nucleotide binding]; other site 879090001550 DNA binding site [nucleotide binding] 879090001551 sequence specific DNA binding site [nucleotide binding]; other site 879090001552 putative cAMP binding site [chemical binding]; other site 879090001553 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090001554 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 879090001555 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 879090001556 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 879090001557 NAD binding site [chemical binding]; other site 879090001558 sugar binding site [chemical binding]; other site 879090001559 divalent metal binding site [ion binding]; other site 879090001560 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090001561 dimer interface [polypeptide binding]; other site 879090001562 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 879090001563 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 879090001564 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 879090001565 putative active site [active] 879090001566 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 879090001567 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 879090001568 Sulfate transporter family; Region: Sulfate_transp; pfam00916 879090001569 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 879090001570 Uncharacterized conserved protein [Function unknown]; Region: COG5361 879090001571 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 879090001572 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 879090001573 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 879090001574 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 879090001575 DNA binding residues [nucleotide binding] 879090001576 dimer interface [polypeptide binding]; other site 879090001577 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 879090001578 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 879090001579 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 879090001580 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 879090001581 DXD motif; other site 879090001582 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 879090001583 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 879090001584 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 879090001585 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 879090001586 S-adenosylmethionine binding site [chemical binding]; other site 879090001587 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 879090001588 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 879090001589 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090001590 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090001591 DNA binding site [nucleotide binding] 879090001592 domain linker motif; other site 879090001593 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 879090001594 putative dimerization interface [polypeptide binding]; other site 879090001595 putative ligand binding site [chemical binding]; other site 879090001596 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 879090001597 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 879090001598 NAD binding site [chemical binding]; other site 879090001599 sugar binding site [chemical binding]; other site 879090001600 divalent metal binding site [ion binding]; other site 879090001601 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090001602 dimer interface [polypeptide binding]; other site 879090001603 allantoate amidohydrolase; Reviewed; Region: PRK09290 879090001604 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 879090001605 active site 879090001606 metal binding site [ion binding]; metal-binding site 879090001607 dimer interface [polypeptide binding]; other site 879090001608 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 879090001609 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 879090001610 metal binding site [ion binding]; metal-binding site 879090001611 putative dimer interface [polypeptide binding]; other site 879090001612 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 879090001613 Beta-lactamase; Region: Beta-lactamase; pfam00144 879090001614 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 879090001615 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 879090001616 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 879090001617 intersubunit interface [polypeptide binding]; other site 879090001618 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 879090001619 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 879090001620 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 879090001621 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 879090001622 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 879090001623 Glucitol operon activator protein (GutM); Region: GutM; cl01890 879090001624 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 879090001625 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090001626 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 879090001627 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 879090001628 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 879090001629 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090001630 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879090001631 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090001632 WxL domain surface cell wall-binding; Region: WxL; pfam13731 879090001633 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 879090001634 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 879090001635 FOG: CBS domain [General function prediction only]; Region: COG0517 879090001636 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 879090001637 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 879090001638 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 879090001639 dimer interface [polypeptide binding]; other site 879090001640 active site 879090001641 metal binding site [ion binding]; metal-binding site 879090001642 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 879090001643 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 879090001644 putative substrate translocation pore; other site 879090001645 POT family; Region: PTR2; pfam00854 879090001646 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 879090001647 catalytic core [active] 879090001648 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 879090001649 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 879090001650 catalytic core [active] 879090001651 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 879090001652 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 879090001653 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 879090001654 Cl binding site [ion binding]; other site 879090001655 oligomer interface [polypeptide binding]; other site 879090001656 glutamate dehydrogenase; Provisional; Region: PRK09414 879090001657 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 879090001658 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 879090001659 NAD(P) binding site [chemical binding]; other site 879090001660 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 879090001661 metal binding site [ion binding]; metal-binding site 879090001662 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 879090001663 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 879090001664 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 879090001665 substrate binding site [chemical binding]; other site 879090001666 glutamase interaction surface [polypeptide binding]; other site 879090001667 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 879090001668 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 879090001669 catalytic residues [active] 879090001670 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 879090001671 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 879090001672 putative active site [active] 879090001673 oxyanion strand; other site 879090001674 catalytic triad [active] 879090001675 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 879090001676 putative active site pocket [active] 879090001677 4-fold oligomerization interface [polypeptide binding]; other site 879090001678 metal binding residues [ion binding]; metal-binding site 879090001679 3-fold/trimer interface [polypeptide binding]; other site 879090001680 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 879090001681 histidinol dehydrogenase; Region: hisD; TIGR00069 879090001682 NAD binding site [chemical binding]; other site 879090001683 dimerization interface [polypeptide binding]; other site 879090001684 product binding site; other site 879090001685 substrate binding site [chemical binding]; other site 879090001686 zinc binding site [ion binding]; other site 879090001687 catalytic residues [active] 879090001688 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 879090001689 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 879090001690 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 879090001691 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 879090001692 dimer interface [polypeptide binding]; other site 879090001693 motif 1; other site 879090001694 active site 879090001695 motif 2; other site 879090001696 motif 3; other site 879090001697 histidinol-phosphatase; Reviewed; Region: PRK08123 879090001698 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 879090001699 active site 879090001700 dimer interface [polypeptide binding]; other site 879090001701 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 879090001702 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 879090001703 DNA binding site [nucleotide binding] 879090001704 active site 879090001705 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 879090001706 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 879090001707 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090001708 beta-galactosidase; Region: BGL; TIGR03356 879090001709 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090001710 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090001711 DNA-binding site [nucleotide binding]; DNA binding site 879090001712 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 879090001713 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001714 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090001715 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 879090001716 Uncharacterized conserved protein [Function unknown]; Region: COG2966 879090001717 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 879090001718 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 879090001719 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 879090001720 Predicted esterase [General function prediction only]; Region: COG0400 879090001721 putative hydrolase; Provisional; Region: PRK11460 879090001722 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 879090001723 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 879090001724 putative RNA binding site [nucleotide binding]; other site 879090001725 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 879090001726 S-adenosylmethionine binding site [chemical binding]; other site 879090001727 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 879090001728 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090001729 Bacterial SH3 domain; Region: SH3_3; pfam08239 879090001730 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090001731 NlpC/P60 family; Region: NLPC_P60; pfam00877 879090001732 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 879090001733 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 879090001734 ATP binding site [chemical binding]; other site 879090001735 putative Mg++ binding site [ion binding]; other site 879090001736 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 879090001737 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 879090001738 nucleotide binding region [chemical binding]; other site 879090001739 ATP-binding site [chemical binding]; other site 879090001740 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 879090001741 Domain of unknown function DUF20; Region: UPF0118; pfam01594 879090001742 WxL domain surface cell wall-binding; Region: WxL; pfam13731 879090001743 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 879090001744 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 879090001745 UreD urease accessory protein; Region: UreD; cl00530 879090001746 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 879090001747 DNA photolyase; Region: DNA_photolyase; pfam00875 879090001748 Predicted membrane protein [Function unknown]; Region: COG4852 879090001749 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 879090001750 DAK2 domain; Region: Dak2; pfam02734 879090001751 EDD domain protein, DegV family; Region: DegV; TIGR00762 879090001752 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 879090001753 Steroid 5-alpha reductase family enzyme [General function prediction only]; Region: COG3752 879090001754 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 879090001755 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 879090001756 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 879090001757 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 879090001758 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 879090001759 homodimer interface [polypeptide binding]; other site 879090001760 substrate-cofactor binding pocket; other site 879090001761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090001762 catalytic residue [active] 879090001763 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 879090001764 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090001765 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 879090001766 ligand binding site [chemical binding]; other site 879090001767 flexible hinge region; other site 879090001768 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 879090001769 BioY family; Region: BioY; pfam02632 879090001770 Predicted transcriptional regulators [Transcription]; Region: COG1695 879090001771 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 879090001772 Predicted membrane protein [Function unknown]; Region: COG4709 879090001773 Uncharacterized conserved protein [Function unknown]; Region: COG3595 879090001774 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 879090001775 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 879090001776 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 879090001777 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 879090001778 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 879090001779 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090001780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 879090001781 Coenzyme A binding pocket [chemical binding]; other site 879090001782 Tic20-like protein; Region: Tic20; pfam09685 879090001783 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 879090001784 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879090001785 Transcriptional regulators [Transcription]; Region: MarR; COG1846 879090001786 MarR family; Region: MarR_2; pfam12802 879090001787 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090001788 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090001789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090001790 Walker A/P-loop; other site 879090001791 ATP binding site [chemical binding]; other site 879090001792 Q-loop/lid; other site 879090001793 ABC transporter signature motif; other site 879090001794 Walker B; other site 879090001795 D-loop; other site 879090001796 H-loop/switch region; other site 879090001797 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090001798 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090001799 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 879090001800 Walker A/P-loop; other site 879090001801 ATP binding site [chemical binding]; other site 879090001802 Q-loop/lid; other site 879090001803 ABC transporter signature motif; other site 879090001804 Walker B; other site 879090001805 D-loop; other site 879090001806 H-loop/switch region; other site 879090001807 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 879090001808 active site residue [active] 879090001809 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001810 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090001811 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 879090001812 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 879090001813 Transcriptional regulators [Transcription]; Region: MarR; COG1846 879090001814 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 879090001815 putative DNA binding site [nucleotide binding]; other site 879090001816 putative Zn2+ binding site [ion binding]; other site 879090001817 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 879090001818 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 879090001819 putative NAD(P) binding site [chemical binding]; other site 879090001820 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 879090001821 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 879090001822 Coenzyme A binding pocket [chemical binding]; other site 879090001823 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 879090001824 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 879090001825 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 879090001826 putative active site [active] 879090001827 catalytic site [active] 879090001828 putative metal binding site [ion binding]; other site 879090001829 Catalytic domain of Protein Kinases; Region: PKc; cd00180 879090001830 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 879090001831 active site 879090001832 ATP binding site [chemical binding]; other site 879090001833 substrate binding site [chemical binding]; other site 879090001834 activation loop (A-loop); other site 879090001835 Eukaryotic protein of unknown function (DUF872); Region: DUF872; pfam05915 879090001836 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 879090001837 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 879090001838 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 879090001839 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 879090001840 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090001841 Coenzyme A binding pocket [chemical binding]; other site 879090001842 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 879090001843 active site 879090001844 catalytic triad [active] 879090001845 oxyanion hole [active] 879090001846 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 879090001847 domain interaction interfaces [polypeptide binding]; other site 879090001848 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 879090001849 domain interaction interfaces [polypeptide binding]; other site 879090001850 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 879090001851 domain interaction interfaces [polypeptide binding]; other site 879090001852 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 879090001853 domain interaction interfaces [polypeptide binding]; other site 879090001854 Isochorismatase family; Region: Isochorismatase; pfam00857 879090001855 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 879090001856 catalytic triad [active] 879090001857 conserved cis-peptide bond; other site 879090001858 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090001859 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090001860 PRD domain; Region: PRD; pfam00874 879090001861 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 879090001862 active site 879090001863 P-loop; other site 879090001864 phosphorylation site [posttranslational modification] 879090001865 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 879090001866 active site 879090001867 phosphorylation site [posttranslational modification] 879090001868 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 879090001869 active site 879090001870 phosphorylation site [posttranslational modification] 879090001871 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 879090001872 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 879090001873 active site 879090001874 P-loop; other site 879090001875 phosphorylation site [posttranslational modification] 879090001876 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 879090001877 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 879090001878 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 879090001879 motif II; other site 879090001880 Predicted transcriptional regulator [Transcription]; Region: COG1959 879090001881 Transcriptional regulator; Region: Rrf2; pfam02082 879090001882 Methyltransferase domain; Region: Methyltransf_31; pfam13847 879090001883 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 879090001884 S-adenosylmethionine binding site [chemical binding]; other site 879090001885 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 879090001886 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 879090001887 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 879090001888 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090001889 active site 879090001890 catalytic tetrad [active] 879090001891 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 879090001892 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879090001893 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 879090001894 motif II; other site 879090001895 Transaldolase [Carbohydrate transport and metabolism]; Region: MipB; COG0176 879090001896 catalytic residue [active] 879090001897 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 879090001898 Sulfatase; Region: Sulfatase; pfam00884 879090001899 amino acid transporter; Region: 2A0306; TIGR00909 879090001900 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 879090001901 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 879090001902 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 879090001903 putative metal binding site [ion binding]; other site 879090001904 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 879090001905 active site 879090001906 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 879090001907 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 879090001908 Cl binding site [ion binding]; other site 879090001909 oligomer interface [polypeptide binding]; other site 879090001910 Transcriptional regulators [Transcription]; Region: GntR; COG1802 879090001911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090001912 DNA-binding site [nucleotide binding]; DNA binding site 879090001913 Predicted membrane protein [Function unknown]; Region: COG1511 879090001914 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 879090001915 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 879090001916 linker region; other site 879090001917 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 879090001918 Transcriptional regulators [Transcription]; Region: GntR; COG1802 879090001919 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090001920 DNA-binding site [nucleotide binding]; DNA binding site 879090001921 FCD domain; Region: FCD; cl11656 879090001922 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 879090001923 Predicted integral membrane protein [Function unknown]; Region: COG5523 879090001924 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 879090001925 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 879090001926 active site 879090001927 metal binding site [ion binding]; metal-binding site 879090001928 Predicted membrane protein [Function unknown]; Region: COG2322 879090001929 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 879090001930 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 879090001931 minor groove reading motif; other site 879090001932 helix-hairpin-helix signature motif; other site 879090001933 substrate binding pocket [chemical binding]; other site 879090001934 active site 879090001935 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 879090001936 non-specific DNA binding site [nucleotide binding]; other site 879090001937 salt bridge; other site 879090001938 sequence-specific DNA binding site [nucleotide binding]; other site 879090001939 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 879090001940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 879090001941 Helix-turn-helix domain; Region: HTH_28; pfam13518 879090001942 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 879090001943 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 879090001944 dimer interface [polypeptide binding]; other site 879090001945 substrate binding site [chemical binding]; other site 879090001946 ATP binding site [chemical binding]; other site 879090001947 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090001948 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 879090001949 active site 879090001950 motif I; other site 879090001951 motif II; other site 879090001952 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 879090001953 maltose O-acetyltransferase; Provisional; Region: PRK10092 879090001954 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 879090001955 active site 879090001956 substrate binding site [chemical binding]; other site 879090001957 trimer interface [polypeptide binding]; other site 879090001958 CoA binding site [chemical binding]; other site 879090001959 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 879090001960 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879090001961 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879090001962 Walker A/P-loop; other site 879090001963 ATP binding site [chemical binding]; other site 879090001964 Q-loop/lid; other site 879090001965 ABC transporter signature motif; other site 879090001966 Walker B; other site 879090001967 D-loop; other site 879090001968 H-loop/switch region; other site 879090001969 inner membrane transport permease; Provisional; Region: PRK15066 879090001970 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 879090001971 oxidoreductase; Provisional; Region: PRK07985 879090001972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879090001973 NAD(P) binding site [chemical binding]; other site 879090001974 active site 879090001975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 879090001976 Predicted membrane protein [Function unknown]; Region: COG3152 879090001977 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 879090001978 DNA binding domain of the motility gene repressor (MogR); Region: MogR_DNAbind; pfam12181 879090001979 Flagellar biosynthesis pathway, component FliP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliP; COG1338 879090001980 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 879090001981 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 879090001982 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 879090001983 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 879090001984 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 879090001985 FHIPEP family; Region: FHIPEP; pfam00771 879090001986 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12726 879090001987 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 879090001988 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12819 879090001989 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 879090001990 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 879090001991 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 879090001992 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 879090001993 Protein of unknown function (DUF3964); Region: DUF3964; pfam13107 879090001994 flagellar motor protein MotA; Validated; Region: PRK08124 879090001995 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 879090001996 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 879090001997 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 879090001998 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879090001999 ligand binding site [chemical binding]; other site 879090002000 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 879090002001 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 879090002002 putative metal binding site; other site 879090002003 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 879090002004 binding surface 879090002005 TPR motif; other site 879090002006 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 879090002007 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 879090002008 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 879090002009 active site 879090002010 phosphorylation site [posttranslational modification] 879090002011 intermolecular recognition site; other site 879090002012 dimerization interface [polypeptide binding]; other site 879090002013 flagellin; Provisional; Region: PRK12805 879090002014 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 879090002015 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 879090002016 Response regulator receiver domain; Region: Response_reg; pfam00072 879090002017 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 879090002018 active site 879090002019 phosphorylation site [posttranslational modification] 879090002020 intermolecular recognition site; other site 879090002021 dimerization interface [polypeptide binding]; other site 879090002022 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 879090002023 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 879090002024 putative binding surface; other site 879090002025 active site 879090002026 P2 response regulator binding domain; Region: P2; pfam07194 879090002027 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 879090002028 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 879090002029 ATP binding site [chemical binding]; other site 879090002030 Mg2+ binding site [ion binding]; other site 879090002031 G-X-G motif; other site 879090002032 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 879090002033 flagellar motor switch protein; Validated; Region: PRK06788 879090002034 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 879090002035 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK11911 879090002036 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 879090002037 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 879090002038 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 879090002039 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 879090002040 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 879090002041 flagellar motor switch protein; Validated; Region: PRK06789 879090002042 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 879090002043 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 879090002044 flagellar motor switch protein; Reviewed; Region: PRK06782 879090002045 CheC-like family; Region: CheC; pfam04509 879090002046 CheC-like family; Region: CheC; pfam04509 879090002047 Chemotaxis phosphatase CheX; Region: CheX; cl15816 879090002048 CheC-like family; Region: CheC; pfam04509 879090002049 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 879090002050 Protein of unknown function (DUF327); Region: DUF327; pfam03885 879090002051 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06799 879090002052 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 879090002053 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08073 879090002054 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 879090002055 flagellar capping protein; Validated; Region: fliD; PRK06798 879090002056 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 879090002057 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 879090002058 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 879090002059 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06797 879090002060 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 879090002061 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 879090002062 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 879090002063 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK01699 879090002064 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 879090002065 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 879090002066 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 879090002067 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 879090002068 FliG C-terminal domain; Region: FliG_C; pfam01706 879090002069 flagellar assembly protein H; Validated; Region: fliH; PRK06800 879090002070 Flagellar assembly protein FliH; Region: FliH; pfam02108 879090002071 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06793 879090002072 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 879090002073 Walker A motif; other site 879090002074 ATP binding site [chemical binding]; other site 879090002075 Walker B motif; other site 879090002076 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 879090002077 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 879090002078 N-acetyl-D-glucosamine binding site [chemical binding]; other site 879090002079 catalytic residue [active] 879090002080 Predicted transcriptional regulators [Transcription]; Region: COG1695 879090002081 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 879090002082 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 879090002083 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 879090002084 pyruvate oxidase; Provisional; Region: PRK08611 879090002085 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 879090002086 PYR/PP interface [polypeptide binding]; other site 879090002087 dimer interface [polypeptide binding]; other site 879090002088 tetramer interface [polypeptide binding]; other site 879090002089 TPP binding site [chemical binding]; other site 879090002090 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 879090002091 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 879090002092 TPP-binding site [chemical binding]; other site 879090002093 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 879090002094 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 879090002095 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 879090002096 dimerization interface [polypeptide binding]; other site 879090002097 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 879090002098 dimer interface [polypeptide binding]; other site 879090002099 putative CheW interface [polypeptide binding]; other site 879090002100 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 879090002101 putative active site [active] 879090002102 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 879090002103 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 879090002104 glutaminase active site [active] 879090002105 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 879090002106 dimer interface [polypeptide binding]; other site 879090002107 active site 879090002108 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 879090002109 dimer interface [polypeptide binding]; other site 879090002110 active site 879090002111 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 879090002112 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 879090002113 active site 879090002114 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 879090002115 GIY-YIG motif/motif A; other site 879090002116 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090002117 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090002118 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002119 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879090002120 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 879090002121 non-specific DNA binding site [nucleotide binding]; other site 879090002122 salt bridge; other site 879090002123 sequence-specific DNA binding site [nucleotide binding]; other site 879090002124 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090002125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090002126 DNA binding site [nucleotide binding] 879090002127 domain linker motif; other site 879090002128 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 879090002129 ligand binding site [chemical binding]; other site 879090002130 dimerization interface [polypeptide binding]; other site 879090002131 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 879090002132 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 879090002133 substrate binding site [chemical binding]; other site 879090002134 hexamer interface [polypeptide binding]; other site 879090002135 metal binding site [ion binding]; metal-binding site 879090002136 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 879090002137 BtpA family; Region: BtpA; cl00440 879090002138 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 879090002139 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 879090002140 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 879090002141 active site turn [active] 879090002142 phosphorylation site [posttranslational modification] 879090002143 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 879090002144 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 879090002145 HPr interaction site; other site 879090002146 glycerol kinase (GK) interaction site [polypeptide binding]; other site 879090002147 active site 879090002148 phosphorylation site [posttranslational modification] 879090002149 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090002150 beta-galactosidase; Region: BGL; TIGR03356 879090002151 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090002152 Predicted transcriptional regulators [Transcription]; Region: COG1725 879090002153 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090002154 DNA-binding site [nucleotide binding]; DNA binding site 879090002155 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 879090002156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090002157 Walker A/P-loop; other site 879090002158 ATP binding site [chemical binding]; other site 879090002159 Q-loop/lid; other site 879090002160 ABC transporter signature motif; other site 879090002161 Walker B; other site 879090002162 D-loop; other site 879090002163 H-loop/switch region; other site 879090002164 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090002165 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090002166 Walker A/P-loop; other site 879090002167 ATP binding site [chemical binding]; other site 879090002168 Q-loop/lid; other site 879090002169 ABC transporter signature motif; other site 879090002170 Walker B; other site 879090002171 D-loop; other site 879090002172 H-loop/switch region; other site 879090002173 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 879090002174 FtsX-like permease family; Region: FtsX; pfam02687 879090002175 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879090002176 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 879090002177 non-specific DNA binding site [nucleotide binding]; other site 879090002178 salt bridge; other site 879090002179 sequence-specific DNA binding site [nucleotide binding]; other site 879090002180 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 879090002181 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090002182 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 879090002183 ligand binding site [chemical binding]; other site 879090002184 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 879090002185 non-specific DNA interactions [nucleotide binding]; other site 879090002186 DNA binding site [nucleotide binding] 879090002187 sequence specific DNA binding site [nucleotide binding]; other site 879090002188 putative cAMP binding site [chemical binding]; other site 879090002189 SnoaL-like domain; Region: SnoaL_4; pfam13577 879090002190 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 879090002191 active site 879090002192 catalytic triad [active] 879090002193 oxyanion hole [active] 879090002194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090002195 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879090002196 Walker A/P-loop; other site 879090002197 ATP binding site [chemical binding]; other site 879090002198 Q-loop/lid; other site 879090002199 ABC transporter signature motif; other site 879090002200 Walker B; other site 879090002201 D-loop; other site 879090002202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879090002203 H-loop/switch region; other site 879090002204 active site 879090002205 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 879090002206 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 879090002207 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 879090002208 Zn binding site [ion binding]; other site 879090002209 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 879090002210 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090002211 Zn binding site [ion binding]; other site 879090002212 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 879090002213 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090002214 Zn binding site [ion binding]; other site 879090002215 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 879090002216 Zn binding site [ion binding]; other site 879090002217 Predicted esterase [General function prediction only]; Region: COG0400 879090002218 putative hydrolase; Provisional; Region: PRK11460 879090002219 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 879090002220 GTPases [General function prediction only]; Region: HflX; COG2262 879090002221 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 879090002222 HflX GTPase family; Region: HflX; cd01878 879090002223 G1 box; other site 879090002224 GTP/Mg2+ binding site [chemical binding]; other site 879090002225 Switch I region; other site 879090002226 G2 box; other site 879090002227 G3 box; other site 879090002228 Switch II region; other site 879090002229 G4 box; other site 879090002230 G5 box; other site 879090002231 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 879090002232 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 879090002233 putative active site [active] 879090002234 putative metal binding site [ion binding]; other site 879090002235 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 879090002236 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 879090002237 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 879090002238 Uncharacterized conserved protein [Function unknown]; Region: COG3538 879090002239 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 879090002240 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 879090002241 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090002242 dimer interface [polypeptide binding]; other site 879090002243 conserved gate region; other site 879090002244 putative PBP binding loops; other site 879090002245 ABC-ATPase subunit interface; other site 879090002246 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 879090002247 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090002248 dimer interface [polypeptide binding]; other site 879090002249 conserved gate region; other site 879090002250 putative PBP binding loops; other site 879090002251 ABC-ATPase subunit interface; other site 879090002252 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 879090002253 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 879090002254 Predicted glycosyl hydrolase [Carbohydrate transport and metabolism]; Region: COG4833 879090002255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090002256 DNA-binding site [nucleotide binding]; DNA binding site 879090002257 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090002258 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 879090002259 ligand binding site [chemical binding]; other site 879090002260 dimerization interface [polypeptide binding]; other site 879090002261 Transcriptional regulators [Transcription]; Region: GntR; COG1802 879090002262 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090002263 DNA-binding site [nucleotide binding]; DNA binding site 879090002264 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 879090002265 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 879090002266 putative NADP binding site [chemical binding]; other site 879090002267 putative dimer interface [polypeptide binding]; other site 879090002268 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 879090002269 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 879090002270 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090002271 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090002272 nucleotide binding site [chemical binding]; other site 879090002273 Predicted membrane protein [Function unknown]; Region: COG4811 879090002274 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 879090002275 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 879090002276 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 879090002277 active site 879090002278 phosphorylation site [posttranslational modification] 879090002279 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 879090002280 active pocket/dimerization site; other site 879090002281 active site 879090002282 phosphorylation site [posttranslational modification] 879090002283 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 879090002284 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 879090002285 Walker A motif; other site 879090002286 ATP binding site [chemical binding]; other site 879090002287 Walker B motif; other site 879090002288 arginine finger; other site 879090002289 Transcriptional antiterminator [Transcription]; Region: COG3933 879090002290 PRD domain; Region: PRD; pfam00874 879090002291 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 879090002292 active pocket/dimerization site; other site 879090002293 active site 879090002294 phosphorylation site [posttranslational modification] 879090002295 PRD domain; Region: PRD; pfam00874 879090002296 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 879090002297 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 879090002298 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 879090002299 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 879090002300 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 879090002301 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 879090002302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 879090002303 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 879090002304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 879090002305 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 879090002306 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 879090002307 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 879090002308 putative deacylase active site [active] 879090002309 Predicted amidohydrolase [General function prediction only]; Region: COG0388 879090002310 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 879090002311 active site 879090002312 catalytic triad [active] 879090002313 dimer interface [polypeptide binding]; other site 879090002314 Protein of unknown function (DUF554); Region: DUF554; pfam04474 879090002315 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 879090002316 NADH(P)-binding; Region: NAD_binding_10; pfam13460 879090002317 NAD binding site [chemical binding]; other site 879090002318 substrate binding site [chemical binding]; other site 879090002319 putative active site [active] 879090002320 Predicted permeases [General function prediction only]; Region: RarD; COG2962 879090002321 EamA-like transporter family; Region: EamA; pfam00892 879090002322 Uncharacterized conserved protein [Function unknown]; Region: COG2353 879090002323 Transcriptional regulators [Transcription]; Region: MarR; COG1846 879090002324 MarR family; Region: MarR_2; pfam12802 879090002325 lysine transporter; Provisional; Region: PRK10836 879090002326 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 879090002327 PAS domain; Region: PAS_9; pfam13426 879090002328 putative active site [active] 879090002329 heme pocket [chemical binding]; other site 879090002330 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 879090002331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 879090002332 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090002333 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090002334 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090002335 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090002336 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090002337 LRR adjacent; Region: LRR_adjacent; pfam08191 879090002338 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 879090002339 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 879090002340 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 879090002341 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 879090002342 synthetase active site [active] 879090002343 NTP binding site [chemical binding]; other site 879090002344 metal binding site [ion binding]; metal-binding site 879090002345 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 879090002346 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 879090002347 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879090002348 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 879090002349 non-specific DNA binding site [nucleotide binding]; other site 879090002350 salt bridge; other site 879090002351 sequence-specific DNA binding site [nucleotide binding]; other site 879090002352 Cupin domain; Region: Cupin_2; pfam07883 879090002353 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 879090002354 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 879090002355 Walker A/P-loop; other site 879090002356 ATP binding site [chemical binding]; other site 879090002357 Q-loop/lid; other site 879090002358 ABC transporter signature motif; other site 879090002359 Walker B; other site 879090002360 D-loop; other site 879090002361 H-loop/switch region; other site 879090002362 TOBE domain; Region: TOBE_2; pfam08402 879090002363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 879090002364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090002365 putative PBP binding loops; other site 879090002366 ABC-ATPase subunit interface; other site 879090002367 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 879090002368 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090002369 dimer interface [polypeptide binding]; other site 879090002370 conserved gate region; other site 879090002371 putative PBP binding loops; other site 879090002372 ABC-ATPase subunit interface; other site 879090002373 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 879090002374 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 879090002375 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 879090002376 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 879090002377 active site 879090002378 zinc binding site [ion binding]; other site 879090002379 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 879090002380 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090002381 Zn2+ binding site [ion binding]; other site 879090002382 Mg2+ binding site [ion binding]; other site 879090002383 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090002384 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090002385 nucleotide binding site [chemical binding]; other site 879090002386 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 879090002387 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 879090002388 FMN binding site [chemical binding]; other site 879090002389 substrate binding site [chemical binding]; other site 879090002390 putative catalytic residue [active] 879090002391 Transcriptional regulators [Transcription]; Region: MarR; COG1846 879090002392 MarR family; Region: MarR_2; pfam12802 879090002393 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 879090002394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090002395 Coenzyme A binding pocket [chemical binding]; other site 879090002396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 879090002397 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 879090002398 dimer interface [polypeptide binding]; other site 879090002399 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090002400 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 879090002401 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 879090002402 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879090002403 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 879090002404 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 879090002405 motif II; other site 879090002406 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 879090002407 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 879090002408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090002409 Coenzyme A binding pocket [chemical binding]; other site 879090002410 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 879090002411 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 879090002412 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 879090002413 DNA binding residues [nucleotide binding] 879090002414 putative dimer interface [polypeptide binding]; other site 879090002415 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 879090002416 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090002417 active site 879090002418 catalytic tetrad [active] 879090002419 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 879090002420 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 879090002421 helix swapped region; other site 879090002422 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 879090002423 NADH/NADPH cofactor binding site [chemical binding]; other site 879090002424 homodimer interface [polypeptide binding]; other site 879090002425 substrate binding pocket [chemical binding]; other site 879090002426 catalytic residues [active] 879090002427 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 879090002428 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 879090002429 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 879090002430 PhoU domain; Region: PhoU; pfam01895 879090002431 PhoU domain; Region: PhoU; pfam01895 879090002432 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 879090002433 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 879090002434 dimer interface [polypeptide binding]; other site 879090002435 PYR/PP interface [polypeptide binding]; other site 879090002436 TPP binding site [chemical binding]; other site 879090002437 substrate binding site [chemical binding]; other site 879090002438 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 879090002439 Domain of unknown function; Region: EKR; smart00890 879090002440 4Fe-4S binding domain; Region: Fer4_6; pfam12837 879090002441 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 879090002442 TPP-binding site [chemical binding]; other site 879090002443 dimer interface [polypeptide binding]; other site 879090002444 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 879090002445 Predicted permeases [General function prediction only]; Region: COG0679 879090002446 Helix-turn-helix domain; Region: HTH_28; pfam13518 879090002447 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 879090002448 non-specific DNA binding site [nucleotide binding]; other site 879090002449 salt bridge; other site 879090002450 sequence-specific DNA binding site [nucleotide binding]; other site 879090002451 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 879090002452 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090002453 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090002454 Predicted membrane protein [Function unknown]; Region: COG3223 879090002455 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090002456 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090002457 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 879090002458 Walker A/P-loop; other site 879090002459 ATP binding site [chemical binding]; other site 879090002460 Q-loop/lid; other site 879090002461 ABC transporter signature motif; other site 879090002462 Walker B; other site 879090002463 D-loop; other site 879090002464 H-loop/switch region; other site 879090002465 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 879090002466 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 879090002467 putative substrate translocation pore; other site 879090002468 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 879090002469 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 879090002470 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090002471 putative substrate translocation pore; other site 879090002472 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879090002473 MarR family; Region: MarR; pfam01047 879090002474 MarR family; Region: MarR_2; cl17246 879090002475 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 879090002476 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 879090002477 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879090002478 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 879090002479 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 879090002480 motif II; other site 879090002481 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 879090002482 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002483 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002484 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002485 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002486 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002487 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002488 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 879090002489 Predicted membrane protein [Function unknown]; Region: COG3326 879090002490 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 879090002491 homotrimer interaction site [polypeptide binding]; other site 879090002492 putative active site [active] 879090002493 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 879090002494 substrate binding site [chemical binding]; other site 879090002495 zinc-binding site [ion binding]; other site 879090002496 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 879090002497 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 879090002498 GIY-YIG motif/motif A; other site 879090002499 active site 879090002500 catalytic site [active] 879090002501 putative DNA binding site [nucleotide binding]; other site 879090002502 metal binding site [ion binding]; metal-binding site 879090002503 UvrB/uvrC motif; Region: UVR; pfam02151 879090002504 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 879090002505 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 879090002506 substrate binding pocket [chemical binding]; other site 879090002507 membrane-bound complex binding site; other site 879090002508 hinge residues; other site 879090002509 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 879090002510 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090002511 dimer interface [polypeptide binding]; other site 879090002512 conserved gate region; other site 879090002513 putative PBP binding loops; other site 879090002514 ABC-ATPase subunit interface; other site 879090002515 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 879090002516 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 879090002517 Walker A/P-loop; other site 879090002518 ATP binding site [chemical binding]; other site 879090002519 Q-loop/lid; other site 879090002520 ABC transporter signature motif; other site 879090002521 Walker B; other site 879090002522 D-loop; other site 879090002523 H-loop/switch region; other site 879090002524 amidase; Provisional; Region: PRK11910 879090002525 Amidase; Region: Amidase; cl11426 879090002526 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090002527 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090002528 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 879090002529 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 879090002530 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 879090002531 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 879090002532 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 879090002533 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 879090002534 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 879090002535 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879090002536 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 879090002537 Esterase/lipase [General function prediction only]; Region: COG1647 879090002538 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090002539 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090002540 DNA binding site [nucleotide binding] 879090002541 domain linker motif; other site 879090002542 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 879090002543 putative dimerization interface [polypeptide binding]; other site 879090002544 putative ligand binding site [chemical binding]; other site 879090002545 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 879090002546 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 879090002547 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 879090002548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090002549 dimer interface [polypeptide binding]; other site 879090002550 conserved gate region; other site 879090002551 putative PBP binding loops; other site 879090002552 ABC-ATPase subunit interface; other site 879090002553 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 879090002554 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090002555 dimer interface [polypeptide binding]; other site 879090002556 conserved gate region; other site 879090002557 ABC-ATPase subunit interface; other site 879090002558 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 879090002559 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 879090002560 Ca binding site [ion binding]; other site 879090002561 active site 879090002562 catalytic site [active] 879090002563 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 879090002564 Predicted glycosylase [Carbohydrate transport and metabolism]; Region: COG2152 879090002565 active site 879090002566 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 879090002567 active site 879090002568 substrate binding site [chemical binding]; other site 879090002569 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 879090002570 metal binding site [ion binding]; metal-binding site 879090002571 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 879090002572 DEAD-like helicases superfamily; Region: DEXDc; smart00487 879090002573 ATP binding site [chemical binding]; other site 879090002574 Mg++ binding site [ion binding]; other site 879090002575 motif III; other site 879090002576 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 879090002577 nucleotide binding region [chemical binding]; other site 879090002578 ATP-binding site [chemical binding]; other site 879090002579 Predicted membrane protein [Function unknown]; Region: COG4708 879090002580 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 879090002581 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; pfam10078 879090002582 Predicted transcriptional regulators [Transcription]; Region: COG1733 879090002583 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 879090002584 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 879090002585 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 879090002586 putative substrate translocation pore; other site 879090002587 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090002588 PRD domain; Region: PRD; pfam00874 879090002589 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 879090002590 active site 879090002591 P-loop; other site 879090002592 phosphorylation site [posttranslational modification] 879090002593 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 879090002594 active site 879090002595 phosphorylation site [posttranslational modification] 879090002596 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 879090002597 methionine cluster; other site 879090002598 active site 879090002599 phosphorylation site [posttranslational modification] 879090002600 metal binding site [ion binding]; metal-binding site 879090002601 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 879090002602 active site 879090002603 P-loop; other site 879090002604 phosphorylation site [posttranslational modification] 879090002605 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090002606 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090002607 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 879090002608 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 879090002609 active site 879090002610 trimer interface [polypeptide binding]; other site 879090002611 allosteric site; other site 879090002612 active site lid [active] 879090002613 hexamer (dimer of trimers) interface [polypeptide binding]; other site 879090002614 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090002615 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 879090002616 active site 879090002617 catalytic tetrad [active] 879090002618 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 879090002619 Collagen binding domain; Region: Collagen_bind; pfam05737 879090002620 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 879090002621 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090002622 Uncharacterized conserved protein [Function unknown]; Region: COG3402 879090002623 Predicted membrane protein [Function unknown]; Region: COG3428 879090002624 Bacterial PH domain; Region: DUF304; pfam03703 879090002625 Bacterial PH domain; Region: DUF304; pfam03703 879090002626 Bacterial PH domain; Region: DUF304; pfam03703 879090002627 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 879090002628 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 879090002629 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 879090002630 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 879090002631 active site 879090002632 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 879090002633 dimer interface [polypeptide binding]; other site 879090002634 substrate binding site [chemical binding]; other site 879090002635 catalytic residues [active] 879090002636 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 879090002637 PemK-like protein; Region: PemK; pfam02452 879090002638 Rsbr N terminal; Region: Rsbr_N; pfam08678 879090002639 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 879090002640 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 879090002641 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 879090002642 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 879090002643 ATP binding site [chemical binding]; other site 879090002644 Mg2+ binding site [ion binding]; other site 879090002645 G-X-G motif; other site 879090002646 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 879090002647 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 879090002648 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 879090002649 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 879090002650 anti sigma factor interaction site; other site 879090002651 regulatory phosphorylation site [posttranslational modification]; other site 879090002652 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 879090002653 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 879090002654 ATP binding site [chemical binding]; other site 879090002655 Mg2+ binding site [ion binding]; other site 879090002656 G-X-G motif; other site 879090002657 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 879090002658 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879090002659 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 879090002660 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 879090002661 DNA binding residues [nucleotide binding] 879090002662 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 879090002663 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 879090002664 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 879090002665 Sulfate transporter family; Region: Sulfate_transp; pfam00916 879090002666 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 879090002667 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 879090002668 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 879090002669 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 879090002670 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 879090002671 RNA binding site [nucleotide binding]; other site 879090002672 hypothetical protein; Provisional; Region: PRK04351 879090002673 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 879090002674 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 879090002675 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 879090002676 Uncharacterized conserved protein [Function unknown]; Region: COG5646 879090002677 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090002678 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090002679 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090002680 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090002681 DNA-binding site [nucleotide binding]; DNA binding site 879090002682 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 879090002683 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 879090002684 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 879090002685 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 879090002686 glutathione reductase; Validated; Region: PRK06116 879090002687 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879090002688 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090002689 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 879090002690 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 879090002691 catalytic core [active] 879090002692 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 879090002693 Domain of unknown function DUF20; Region: UPF0118; pfam01594 879090002694 Predicted transcriptional regulators [Transcription]; Region: COG1725 879090002695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090002696 DNA-binding site [nucleotide binding]; DNA binding site 879090002697 Predicted membrane protein [General function prediction only]; Region: COG4194 879090002698 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 879090002699 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 879090002700 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 879090002701 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 879090002702 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 879090002703 tetramerization interface [polypeptide binding]; other site 879090002704 NAD(P) binding site [chemical binding]; other site 879090002705 catalytic residues [active] 879090002706 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 879090002707 active site 879090002708 P-loop; other site 879090002709 phosphorylation site [posttranslational modification] 879090002710 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090002711 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090002712 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 879090002713 methionine cluster; other site 879090002714 active site 879090002715 phosphorylation site [posttranslational modification] 879090002716 metal binding site [ion binding]; metal-binding site 879090002717 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090002718 beta-galactosidase; Region: BGL; TIGR03356 879090002719 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090002720 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090002721 PRD domain; Region: PRD; pfam00874 879090002722 PRD domain; Region: PRD; pfam00874 879090002723 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 879090002724 active site 879090002725 phosphorylation site [posttranslational modification] 879090002726 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090002727 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 879090002728 ABC transporter; Region: ABC_tran_2; pfam12848 879090002729 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090002730 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 879090002731 Predicted permeases [General function prediction only]; Region: COG0701 879090002732 Predicted membrane protein [Function unknown]; Region: COG3689 879090002733 pantothenate kinase; Provisional; Region: PRK05439 879090002734 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 879090002735 ATP-binding site [chemical binding]; other site 879090002736 CoA-binding site [chemical binding]; other site 879090002737 Mg2+-binding site [ion binding]; other site 879090002738 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 879090002739 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879090002740 Walker A/P-loop; other site 879090002741 ATP binding site [chemical binding]; other site 879090002742 Q-loop/lid; other site 879090002743 ABC transporter signature motif; other site 879090002744 Walker B; other site 879090002745 D-loop; other site 879090002746 H-loop/switch region; other site 879090002747 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 879090002748 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 879090002749 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090002750 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090002751 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 879090002752 Domain of unknown function (DUF373); Region: DUF373; cl12079 879090002753 Sulfatase; Region: Sulfatase; pfam00884 879090002754 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 879090002755 active site 879090002756 DNA binding site [nucleotide binding] 879090002757 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 879090002758 active site 879090002759 catalytic site [active] 879090002760 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 879090002761 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 879090002762 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 879090002763 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 879090002764 Uncharacterized conserved protein [Function unknown]; Region: COG0398 879090002765 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 879090002766 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 879090002767 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 879090002768 Ligand binding site; other site 879090002769 Putative Catalytic site; other site 879090002770 DXD motif; other site 879090002771 epoxyqueuosine reductase; Region: TIGR00276 879090002772 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 879090002773 A new structural DNA glycosylase; Region: AlkD_like; cl11434 879090002774 active site 879090002775 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 879090002776 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 879090002777 dimer interface [polypeptide binding]; other site 879090002778 FMN binding site [chemical binding]; other site 879090002779 NADPH bind site [chemical binding]; other site 879090002780 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 879090002781 Low molecular weight phosphatase family; Region: LMWPc; cd00115 879090002782 active site 879090002783 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 879090002784 HSP90 family protein; Provisional; Region: PRK14083 879090002785 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 879090002786 ATP binding site [chemical binding]; other site 879090002787 Mg2+ binding site [ion binding]; other site 879090002788 G-X-G motif; other site 879090002789 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 879090002790 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 879090002791 dimerization interface [polypeptide binding]; other site 879090002792 DPS ferroxidase diiron center [ion binding]; other site 879090002793 ion pore; other site 879090002794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 879090002795 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 879090002796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 879090002797 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 879090002798 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 879090002799 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 879090002800 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 879090002801 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 879090002802 putative substrate translocation pore; other site 879090002803 Transcriptional regulators [Transcription]; Region: FadR; COG2186 879090002804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090002805 DNA-binding site [nucleotide binding]; DNA binding site 879090002806 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 879090002807 Domain of unknown function DUF20; Region: UPF0118; pfam01594 879090002808 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 879090002809 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 879090002810 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 879090002811 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 879090002812 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 879090002813 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 879090002814 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 879090002815 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 879090002816 active site 879090002817 dimer interface [polypeptide binding]; other site 879090002818 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 879090002819 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 879090002820 active site 879090002821 trimer interface [polypeptide binding]; other site 879090002822 allosteric site; other site 879090002823 active site lid [active] 879090002824 hexamer (dimer of trimers) interface [polypeptide binding]; other site 879090002825 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090002826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090002827 DNA-binding site [nucleotide binding]; DNA binding site 879090002828 UTRA domain; Region: UTRA; pfam07702 879090002829 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 879090002830 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 879090002831 Mg++ binding site [ion binding]; other site 879090002832 putative catalytic motif [active] 879090002833 substrate binding site [chemical binding]; other site 879090002834 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 879090002835 Peptidase family U32; Region: Peptidase_U32; pfam01136 879090002836 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 879090002837 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 879090002838 Peptidase family U32; Region: Peptidase_U32; pfam01136 879090002839 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 879090002840 heat shock protein HtpX; Provisional; Region: PRK04897 879090002841 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 879090002842 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 879090002843 catalytic residues [active] 879090002844 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 879090002845 putative active site [active] 879090002846 putative metal binding residues [ion binding]; other site 879090002847 signature motif; other site 879090002848 putative triphosphate binding site [ion binding]; other site 879090002849 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 879090002850 TPR motif; other site 879090002851 binding surface 879090002852 TPR repeat; Region: TPR_11; pfam13414 879090002853 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 879090002854 synthetase active site [active] 879090002855 NTP binding site [chemical binding]; other site 879090002856 metal binding site [ion binding]; metal-binding site 879090002857 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 879090002858 ATP-NAD kinase; Region: NAD_kinase; pfam01513 879090002859 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 879090002860 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 879090002861 active site 879090002862 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 879090002863 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 879090002864 NAD binding site [chemical binding]; other site 879090002865 homotetramer interface [polypeptide binding]; other site 879090002866 homodimer interface [polypeptide binding]; other site 879090002867 substrate binding site [chemical binding]; other site 879090002868 active site 879090002869 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 879090002870 DltD N-terminal region; Region: DltD_N; pfam04915 879090002871 DltD central region; Region: DltD_M; pfam04918 879090002872 DltD C-terminal region; Region: DltD_C; pfam04914 879090002873 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 879090002874 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 879090002875 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 879090002876 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 879090002877 acyl-activating enzyme (AAE) consensus motif; other site 879090002878 AMP binding site [chemical binding]; other site 879090002879 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 879090002880 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 879090002881 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090002882 active site 879090002883 dimer interface [polypeptide binding]; other site 879090002884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090002885 Coenzyme A binding pocket [chemical binding]; other site 879090002886 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 879090002887 Putative esterase; Region: Esterase; pfam00756 879090002888 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 879090002889 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 879090002890 homodimer interface [polypeptide binding]; other site 879090002891 substrate-cofactor binding pocket; other site 879090002892 catalytic residue [active] 879090002893 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 879090002894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090002895 Walker A/P-loop; other site 879090002896 ATP binding site [chemical binding]; other site 879090002897 Q-loop/lid; other site 879090002898 ABC transporter signature motif; other site 879090002899 Walker B; other site 879090002900 D-loop; other site 879090002901 H-loop/switch region; other site 879090002902 ABC-2 type transporter; Region: ABC2_membrane; cl17235 879090002903 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 879090002904 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 879090002905 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090002906 putative substrate translocation pore; other site 879090002907 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 879090002908 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 879090002909 putative oligomer interface [polypeptide binding]; other site 879090002910 putative active site [active] 879090002911 metal binding site [ion binding]; metal-binding site 879090002912 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 879090002913 catalytic residues [active] 879090002914 dimer interface [polypeptide binding]; other site 879090002915 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 879090002916 LytTr DNA-binding domain; Region: LytTR; pfam04397 879090002917 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879090002918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090002919 Walker A/P-loop; other site 879090002920 ATP binding site [chemical binding]; other site 879090002921 Q-loop/lid; other site 879090002922 ABC transporter signature motif; other site 879090002923 Walker B; other site 879090002924 D-loop; other site 879090002925 H-loop/switch region; other site 879090002926 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 879090002927 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 879090002928 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 879090002929 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 879090002930 G1 box; other site 879090002931 putative GEF interaction site [polypeptide binding]; other site 879090002932 GTP/Mg2+ binding site [chemical binding]; other site 879090002933 Switch I region; other site 879090002934 G2 box; other site 879090002935 G3 box; other site 879090002936 Switch II region; other site 879090002937 G4 box; other site 879090002938 G5 box; other site 879090002939 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 879090002940 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879090002941 MarR family; Region: MarR_2; cl17246 879090002942 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879090002943 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 879090002944 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 879090002945 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 879090002946 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 879090002947 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 879090002948 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 879090002949 Acyltransferase family; Region: Acyl_transf_3; pfam01757 879090002950 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 879090002951 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 879090002952 DNA binding site [nucleotide binding] 879090002953 active site 879090002954 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 879090002955 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 879090002956 Walker A motif; other site 879090002957 ATP binding site [chemical binding]; other site 879090002958 Walker B motif; other site 879090002959 arginine finger; other site 879090002960 UvrB/uvrC motif; Region: UVR; pfam02151 879090002961 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 879090002962 Walker A motif; other site 879090002963 ATP binding site [chemical binding]; other site 879090002964 Walker B motif; other site 879090002965 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 879090002966 CAAX protease self-immunity; Region: Abi; pfam02517 879090002967 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 879090002968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 879090002969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4873 879090002970 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 879090002971 dimerization domain swap beta strand [polypeptide binding]; other site 879090002972 regulatory protein interface [polypeptide binding]; other site 879090002973 active site 879090002974 regulatory phosphorylation site [posttranslational modification]; other site 879090002975 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 879090002976 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 879090002977 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 879090002978 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 879090002979 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 879090002980 Uncharacterized conserved protein [Function unknown]; Region: COG1434 879090002981 putative active site [active] 879090002982 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 879090002983 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 879090002984 aminotransferase A; Validated; Region: PRK07683 879090002985 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 879090002986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090002987 homodimer interface [polypeptide binding]; other site 879090002988 catalytic residue [active] 879090002989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 879090002990 FOG: CBS domain [General function prediction only]; Region: COG0517 879090002991 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 879090002992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090002993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090002994 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 879090002995 dimerization interface [polypeptide binding]; other site 879090002996 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 879090002997 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 879090002998 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 879090002999 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 879090003000 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 879090003001 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 879090003002 metal binding site [ion binding]; metal-binding site 879090003003 putative dimer interface [polypeptide binding]; other site 879090003004 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 879090003005 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 879090003006 Mechanosensitive ion channel; Region: MS_channel; pfam00924 879090003007 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 879090003008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090003009 Walker A/P-loop; other site 879090003010 ATP binding site [chemical binding]; other site 879090003011 Q-loop/lid; other site 879090003012 ABC transporter signature motif; other site 879090003013 Walker B; other site 879090003014 D-loop; other site 879090003015 H-loop/switch region; other site 879090003016 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 879090003017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090003018 dimer interface [polypeptide binding]; other site 879090003019 conserved gate region; other site 879090003020 putative PBP binding loops; other site 879090003021 ABC-ATPase subunit interface; other site 879090003022 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 879090003023 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 879090003024 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 879090003025 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 879090003026 HPr interaction site; other site 879090003027 glycerol kinase (GK) interaction site [polypeptide binding]; other site 879090003028 active site 879090003029 phosphorylation site [posttranslational modification] 879090003030 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 879090003031 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 879090003032 S1 domain; Region: S1_2; pfam13509 879090003033 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 879090003034 RNA binding site [nucleotide binding]; other site 879090003035 Predicted membrane protein [Function unknown]; Region: COG4758 879090003036 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 879090003037 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 879090003038 Histidine kinase; Region: HisKA_3; pfam07730 879090003039 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 879090003040 ATP binding site [chemical binding]; other site 879090003041 Mg2+ binding site [ion binding]; other site 879090003042 G-X-G motif; other site 879090003043 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 879090003044 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 879090003045 active site 879090003046 phosphorylation site [posttranslational modification] 879090003047 intermolecular recognition site; other site 879090003048 dimerization interface [polypeptide binding]; other site 879090003049 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 879090003050 DNA binding residues [nucleotide binding] 879090003051 dimerization interface [polypeptide binding]; other site 879090003052 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 879090003053 TrkA-N domain; Region: TrkA_N; pfam02254 879090003054 TrkA-C domain; Region: TrkA_C; pfam02080 879090003055 Predicted membrane protein [Function unknown]; Region: COG1289 879090003056 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 879090003057 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 879090003058 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 879090003059 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 879090003060 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 879090003061 hypothetical protein; Provisional; Region: PRK13667 879090003062 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090003063 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 879090003064 active site 879090003065 motif I; other site 879090003066 motif II; other site 879090003067 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 879090003068 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090003069 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090003070 DNA binding site [nucleotide binding] 879090003071 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 879090003072 ligand binding site [chemical binding]; other site 879090003073 dimerization interface [polypeptide binding]; other site 879090003074 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 879090003075 hexamer (dimer of trimers) interface [polypeptide binding]; other site 879090003076 trimer interface [polypeptide binding]; other site 879090003077 substrate binding site [chemical binding]; other site 879090003078 Mn binding site [ion binding]; other site 879090003079 transketolase; Reviewed; Region: PRK05899 879090003080 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 879090003081 TPP-binding site [chemical binding]; other site 879090003082 dimer interface [polypeptide binding]; other site 879090003083 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 879090003084 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 879090003085 PYR/PP interface [polypeptide binding]; other site 879090003086 dimer interface [polypeptide binding]; other site 879090003087 TPP binding site [chemical binding]; other site 879090003088 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879090003089 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 879090003090 Uncharacterized subgroup; belongs to the glycerol kinases subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GK_1; cd10427 879090003091 N- and C-terminal domain interface [polypeptide binding]; other site 879090003092 active site 879090003093 MgATP binding site [chemical binding]; other site 879090003094 catalytic site [active] 879090003095 metal binding site [ion binding]; metal-binding site 879090003096 putative glycerol binding site [chemical binding]; other site 879090003097 putative homotetramer interface [polypeptide binding]; other site 879090003098 putative homodimer interface [polypeptide binding]; other site 879090003099 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 879090003100 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 879090003101 active site turn [active] 879090003102 phosphorylation site [posttranslational modification] 879090003103 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 879090003104 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 879090003105 HPr interaction site; other site 879090003106 glycerol kinase (GK) interaction site [polypeptide binding]; other site 879090003107 active site 879090003108 phosphorylation site [posttranslational modification] 879090003109 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 879090003110 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 879090003111 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 879090003112 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 879090003113 GTP binding site; other site 879090003114 ATP-binding cassette domain of the molybdenum transport system; Region: ABC_ModC_molybdenum_transporter; cd03297 879090003115 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 879090003116 Walker A/P-loop; other site 879090003117 ATP binding site [chemical binding]; other site 879090003118 Q-loop/lid; other site 879090003119 ABC transporter signature motif; other site 879090003120 Walker B; other site 879090003121 D-loop; other site 879090003122 H-loop/switch region; other site 879090003123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090003124 dimer interface [polypeptide binding]; other site 879090003125 conserved gate region; other site 879090003126 putative PBP binding loops; other site 879090003127 ABC-ATPase subunit interface; other site 879090003128 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 879090003129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 879090003130 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 879090003131 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 879090003132 dimer interface [polypeptide binding]; other site 879090003133 putative functional site; other site 879090003134 putative MPT binding site; other site 879090003135 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 879090003136 Walker A motif; other site 879090003137 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 879090003138 MoaE homodimer interface [polypeptide binding]; other site 879090003139 MoaD interaction [polypeptide binding]; other site 879090003140 active site residues [active] 879090003141 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 879090003142 MoaE interaction surface [polypeptide binding]; other site 879090003143 MoeB interaction surface [polypeptide binding]; other site 879090003144 thiocarboxylated glycine; other site 879090003145 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 879090003146 trimer interface [polypeptide binding]; other site 879090003147 dimer interface [polypeptide binding]; other site 879090003148 putative active site [active] 879090003149 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 879090003150 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 879090003151 FeS/SAM binding site; other site 879090003152 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 879090003153 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 879090003154 MPT binding site; other site 879090003155 trimer interface [polypeptide binding]; other site 879090003156 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 879090003157 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 879090003158 ATP binding site [chemical binding]; other site 879090003159 substrate interface [chemical binding]; other site 879090003160 Flavin Reductases; Region: FlaRed; cl00801 879090003161 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 879090003162 active site 879090003163 catalytic residues [active] 879090003164 metal binding site [ion binding]; metal-binding site 879090003165 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 879090003166 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 879090003167 TPP-binding site [chemical binding]; other site 879090003168 tetramer interface [polypeptide binding]; other site 879090003169 heterodimer interface [polypeptide binding]; other site 879090003170 phosphorylation loop region [posttranslational modification] 879090003171 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 879090003172 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 879090003173 alpha subunit interface [polypeptide binding]; other site 879090003174 TPP binding site [chemical binding]; other site 879090003175 heterodimer interface [polypeptide binding]; other site 879090003176 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879090003177 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 879090003178 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 879090003179 E3 interaction surface; other site 879090003180 lipoyl attachment site [posttranslational modification]; other site 879090003181 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 879090003182 E3 interaction surface; other site 879090003183 lipoyl attachment site [posttranslational modification]; other site 879090003184 e3 binding domain; Region: E3_binding; pfam02817 879090003185 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 879090003186 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 879090003187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 879090003188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090003189 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 879090003190 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 879090003191 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 879090003192 NAD(P) binding site [chemical binding]; other site 879090003193 LDH/MDH dimer interface [polypeptide binding]; other site 879090003194 substrate binding site [chemical binding]; other site 879090003195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4476 879090003196 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 879090003197 Thioredoxin; Region: Thioredoxin_4; pfam13462 879090003198 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090003199 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 879090003200 active site 879090003201 phosphorylation site [posttranslational modification] 879090003202 intermolecular recognition site; other site 879090003203 dimerization interface [polypeptide binding]; other site 879090003204 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 879090003205 DNA binding site [nucleotide binding] 879090003206 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 879090003207 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 879090003208 dimerization interface [polypeptide binding]; other site 879090003209 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 879090003210 dimer interface [polypeptide binding]; other site 879090003211 phosphorylation site [posttranslational modification] 879090003212 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 879090003213 ATP binding site [chemical binding]; other site 879090003214 Mg2+ binding site [ion binding]; other site 879090003215 G-X-G motif; other site 879090003216 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879090003217 FtsX-like permease family; Region: FtsX; pfam02687 879090003218 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090003219 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090003220 Walker A/P-loop; other site 879090003221 ATP binding site [chemical binding]; other site 879090003222 Q-loop/lid; other site 879090003223 ABC transporter signature motif; other site 879090003224 Walker B; other site 879090003225 D-loop; other site 879090003226 H-loop/switch region; other site 879090003227 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 879090003228 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 879090003229 Cl binding site [ion binding]; other site 879090003230 oligomer interface [polypeptide binding]; other site 879090003231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 879090003232 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 879090003233 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 879090003234 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 879090003235 active site 879090003236 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 879090003237 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 879090003238 G1 box; other site 879090003239 putative GEF interaction site [polypeptide binding]; other site 879090003240 GTP/Mg2+ binding site [chemical binding]; other site 879090003241 Switch I region; other site 879090003242 G2 box; other site 879090003243 G3 box; other site 879090003244 Switch II region; other site 879090003245 G4 box; other site 879090003246 G5 box; other site 879090003247 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 879090003248 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 879090003249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4896 879090003250 hypothetical protein; Provisional; Region: PRK13666 879090003251 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 879090003252 pyruvate carboxylase; Reviewed; Region: PRK12999 879090003253 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 879090003254 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 879090003255 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 879090003256 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 879090003257 active site 879090003258 catalytic residues [active] 879090003259 metal binding site [ion binding]; metal-binding site 879090003260 homodimer binding site [polypeptide binding]; other site 879090003261 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 879090003262 carboxyltransferase (CT) interaction site; other site 879090003263 biotinylation site [posttranslational modification]; other site 879090003264 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 879090003265 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 879090003266 putative binding site residues; other site 879090003267 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 879090003268 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 879090003269 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 879090003270 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 879090003271 Walker A/P-loop; other site 879090003272 ATP binding site [chemical binding]; other site 879090003273 Q-loop/lid; other site 879090003274 ABC transporter signature motif; other site 879090003275 Walker B; other site 879090003276 D-loop; other site 879090003277 H-loop/switch region; other site 879090003278 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 879090003279 SH3-like domain; Region: SH3_8; pfam13457 879090003280 SH3-like domain; Region: SH3_8; pfam13457 879090003281 SH3-like domain; Region: SH3_8; pfam13457 879090003282 SH3-like domain; Region: SH3_8; pfam13457 879090003283 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 879090003284 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 879090003285 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 879090003286 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 879090003287 active site 879090003288 tetramer interface; other site 879090003289 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 879090003290 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 879090003291 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 879090003292 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 879090003293 active site 879090003294 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 879090003295 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 879090003296 substrate binding site; other site 879090003297 tetramer interface; other site 879090003298 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 879090003299 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 879090003300 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 879090003301 NAD binding site [chemical binding]; other site 879090003302 substrate binding site [chemical binding]; other site 879090003303 homodimer interface [polypeptide binding]; other site 879090003304 active site 879090003305 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 879090003306 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 879090003307 NADP binding site [chemical binding]; other site 879090003308 active site 879090003309 putative substrate binding site [chemical binding]; other site 879090003310 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 879090003311 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 879090003312 substrate binding site; other site 879090003313 dimer interface; other site 879090003314 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 879090003315 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 879090003316 putative NAD(P) binding site [chemical binding]; other site 879090003317 putative catalytic Zn binding site [ion binding]; other site 879090003318 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 879090003319 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 879090003320 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 879090003321 active site 879090003322 putative glycosyl transferase; Provisional; Region: PRK10073 879090003323 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 879090003324 active site 879090003325 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 879090003326 active site 879090003327 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 879090003328 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 879090003329 active site 879090003330 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 879090003331 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 879090003332 homodimer interface [polypeptide binding]; other site 879090003333 NAD binding pocket [chemical binding]; other site 879090003334 ATP binding pocket [chemical binding]; other site 879090003335 Mg binding site [ion binding]; other site 879090003336 active-site loop [active] 879090003337 Uncharacterized conserved protein [Function unknown]; Region: COG1359 879090003338 Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]; Region: CelA; COG1440 879090003339 active site 879090003340 P-loop; other site 879090003341 phosphorylation site [posttranslational modification] 879090003342 GMP synthase; Reviewed; Region: guaA; PRK00074 879090003343 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 879090003344 AMP/PPi binding site [chemical binding]; other site 879090003345 candidate oxyanion hole; other site 879090003346 catalytic triad [active] 879090003347 potential glutamine specificity residues [chemical binding]; other site 879090003348 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 879090003349 ATP Binding subdomain [chemical binding]; other site 879090003350 Dimerization subdomain; other site 879090003351 Integrase core domain; Region: rve_3; cl15866 879090003352 Transposase; Region: HTH_Tnp_1; pfam01527 879090003353 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 879090003354 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 879090003355 Methyltransferase domain; Region: Methyltransf_26; pfam13659 879090003356 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 879090003357 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 879090003358 S-adenosylmethionine binding site [chemical binding]; other site 879090003359 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 879090003360 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 879090003361 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 879090003362 putative active site [active] 879090003363 putative NTP binding site [chemical binding]; other site 879090003364 putative nucleic acid binding site [nucleotide binding]; other site 879090003365 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 879090003366 LXG domain of WXG superfamily; Region: LXG; pfam04740 879090003367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 879090003368 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 879090003369 MepB protein; Region: MepB; cl01985 879090003370 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 879090003371 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 879090003372 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 879090003373 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090003374 Coenzyme A binding pocket [chemical binding]; other site 879090003375 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 879090003376 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 879090003377 DNA binding residues [nucleotide binding] 879090003378 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 879090003379 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090003380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090003381 Walker A/P-loop; other site 879090003382 ATP binding site [chemical binding]; other site 879090003383 Q-loop/lid; other site 879090003384 ABC transporter signature motif; other site 879090003385 Walker B; other site 879090003386 D-loop; other site 879090003387 H-loop/switch region; other site 879090003388 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090003389 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090003390 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090003391 Walker A/P-loop; other site 879090003392 ATP binding site [chemical binding]; other site 879090003393 Q-loop/lid; other site 879090003394 ABC transporter signature motif; other site 879090003395 Walker B; other site 879090003396 D-loop; other site 879090003397 H-loop/switch region; other site 879090003398 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 879090003399 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 879090003400 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 879090003401 DNA binding residues [nucleotide binding] 879090003402 putative dimer interface [polypeptide binding]; other site 879090003403 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090003404 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879090003405 LRR adjacent; Region: LRR_adjacent; pfam08191 879090003406 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090003407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 879090003408 Clp protease; Region: CLP_protease; pfam00574 879090003409 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 879090003410 oligomer interface [polypeptide binding]; other site 879090003411 active site residues [active] 879090003412 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 879090003413 dimer interface [polypeptide binding]; other site 879090003414 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090003415 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 879090003416 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 879090003417 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 879090003418 SLBB domain; Region: SLBB; pfam10531 879090003419 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 879090003420 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 879090003421 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 879090003422 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 879090003423 putative hexamer interface [polypeptide binding]; other site 879090003424 putative hexagonal pore; other site 879090003425 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 879090003426 putative hexamer interface [polypeptide binding]; other site 879090003427 putative hexagonal pore; other site 879090003428 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 879090003429 putative hexamer interface [polypeptide binding]; other site 879090003430 putative hexagonal pore; other site 879090003431 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 879090003432 G1 box; other site 879090003433 GTP/Mg2+ binding site [chemical binding]; other site 879090003434 G2 box; other site 879090003435 Switch I region; other site 879090003436 G3 box; other site 879090003437 Switch II region; other site 879090003438 G4 box; other site 879090003439 G5 box; other site 879090003440 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 879090003441 homotrimer interface [polypeptide binding]; other site 879090003442 Walker A motif; other site 879090003443 GTP binding site [chemical binding]; other site 879090003444 Walker B motif; other site 879090003445 Cobalamin-5-phosphate synthase [Coenzyme metabolism]; Region: CobS; COG0368 879090003446 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 879090003447 catalytic core [active] 879090003448 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 879090003449 Sensory domain found in PocR; Region: PocR; pfam10114 879090003450 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090003451 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 879090003452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090003453 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 879090003454 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 879090003455 Hexamer interface [polypeptide binding]; other site 879090003456 Hexagonal pore residue; other site 879090003457 propanediol utilization protein PduB; Provisional; Region: PRK15415 879090003458 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 879090003459 putative hexamer interface [polypeptide binding]; other site 879090003460 putative hexagonal pore; other site 879090003461 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 879090003462 putative hexamer interface [polypeptide binding]; other site 879090003463 putative hexagonal pore; other site 879090003464 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 879090003465 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 879090003466 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 879090003467 alpha-beta subunit interface [polypeptide binding]; other site 879090003468 alpha-gamma subunit interface [polypeptide binding]; other site 879090003469 active site 879090003470 substrate and K+ binding site; other site 879090003471 K+ binding site [ion binding]; other site 879090003472 cobalamin binding site [chemical binding]; other site 879090003473 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 879090003474 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 879090003475 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 879090003476 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 879090003477 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 879090003478 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 879090003479 putative hexamer interface [polypeptide binding]; other site 879090003480 putative hexagonal pore; other site 879090003481 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 879090003482 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 879090003483 Hexamer interface [polypeptide binding]; other site 879090003484 Hexagonal pore residue; other site 879090003485 Propanediol utilization protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduL; COG4869 879090003486 Propanediol utilisation protein PduL; Region: PduL; pfam06130 879090003487 Propanediol utilisation protein PduL; Region: PduL; pfam06130 879090003488 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 879090003489 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090003490 nucleotide binding site [chemical binding]; other site 879090003491 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 879090003492 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 879090003493 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 879090003494 Hexamer/Pentamer interface [polypeptide binding]; other site 879090003495 central pore; other site 879090003496 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 879090003497 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 879090003498 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 879090003499 putative catalytic cysteine [active] 879090003500 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 879090003501 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 879090003502 putative active site [active] 879090003503 metal binding site [ion binding]; metal-binding site 879090003504 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 879090003505 amphipathic channel; other site 879090003506 Asn-Pro-Ala signature motifs; other site 879090003507 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 879090003508 propionate/acetate kinase; Provisional; Region: PRK12379 879090003509 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 879090003510 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 879090003511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090003512 homodimer interface [polypeptide binding]; other site 879090003513 catalytic residue [active] 879090003514 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 879090003515 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 879090003516 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 879090003517 putative active site [active] 879090003518 metal binding site [ion binding]; metal-binding site 879090003519 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 879090003520 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 879090003521 active site 879090003522 phosphorylation site [posttranslational modification] 879090003523 intermolecular recognition site; other site 879090003524 dimerization interface [polypeptide binding]; other site 879090003525 ANTAR domain; Region: ANTAR; pfam03861 879090003526 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 879090003527 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 879090003528 Histidine kinase; Region: HisKA_2; pfam07568 879090003529 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 879090003530 ATP binding site [chemical binding]; other site 879090003531 Mg2+ binding site [ion binding]; other site 879090003532 G-X-G motif; other site 879090003533 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 879090003534 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 879090003535 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 879090003536 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 879090003537 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 879090003538 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 879090003539 putative hexamer interface [polypeptide binding]; other site 879090003540 putative hexagonal pore; other site 879090003541 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 879090003542 putative hexamer interface [polypeptide binding]; other site 879090003543 putative hexagonal pore; other site 879090003544 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 879090003545 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 879090003546 Hexamer interface [polypeptide binding]; other site 879090003547 Hexagonal pore residue; other site 879090003548 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 879090003549 putative catalytic cysteine [active] 879090003550 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 879090003551 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 879090003552 Hexamer interface [polypeptide binding]; other site 879090003553 Putative hexagonal pore residue; other site 879090003554 Ethanolamine utilization cobalamin adenosyltransferase [Amino acid transport and metabolism]; Region: EutT; COG4812 879090003555 Propanediol utilization protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduL; COG4869 879090003556 Propanediol utilisation protein PduL; Region: PduL; pfam06130 879090003557 Propanediol utilisation protein PduL; Region: PduL; pfam06130 879090003558 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 879090003559 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 879090003560 Hexamer/Pentamer interface [polypeptide binding]; other site 879090003561 central pore; other site 879090003562 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 879090003563 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 879090003564 putative hexamer interface [polypeptide binding]; other site 879090003565 putative hexagonal pore; other site 879090003566 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 879090003567 putative hexamer interface [polypeptide binding]; other site 879090003568 putative hexagonal pore; other site 879090003569 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 879090003570 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 879090003571 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 879090003572 hypothetical protein; Region: PHA01818 879090003573 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090003574 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 879090003575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090003576 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 879090003577 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 879090003578 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 879090003579 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 879090003580 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 879090003581 catalytic triad [active] 879090003582 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 879090003583 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 879090003584 Precorrin-8X methylmutase; Region: CbiC; pfam02570 879090003585 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 879090003586 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 879090003587 active site 879090003588 putative homodimer interface [polypeptide binding]; other site 879090003589 SAM binding site [chemical binding]; other site 879090003590 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 879090003591 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 879090003592 S-adenosylmethionine binding site [chemical binding]; other site 879090003593 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 879090003594 active site 879090003595 SAM binding site [chemical binding]; other site 879090003596 homodimer interface [polypeptide binding]; other site 879090003597 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 879090003598 active site 879090003599 SAM binding site [chemical binding]; other site 879090003600 homodimer interface [polypeptide binding]; other site 879090003601 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 879090003602 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 879090003603 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 879090003604 active site 879090003605 SAM binding site [chemical binding]; other site 879090003606 homodimer interface [polypeptide binding]; other site 879090003607 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 879090003608 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 879090003609 active site 879090003610 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 879090003611 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 879090003612 active site 879090003613 C-terminal domain interface [polypeptide binding]; other site 879090003614 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 879090003615 active site 879090003616 N-terminal domain interface [polypeptide binding]; other site 879090003617 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 879090003618 active site 879090003619 SAM binding site [chemical binding]; other site 879090003620 homodimer interface [polypeptide binding]; other site 879090003621 cobalt transport protein CbiM; Validated; Region: PRK08319 879090003622 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 879090003623 ABC-type cobalt transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiN; COG1930 879090003624 cobalt transport protein CbiQ; Provisional; Region: PRK15485 879090003625 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 879090003626 Q-loop/lid; other site 879090003627 ABC transporter signature motif; other site 879090003628 Walker B; other site 879090003629 D-loop; other site 879090003630 H-loop/switch region; other site 879090003631 cobyric acid synthase; Provisional; Region: PRK00784 879090003632 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 879090003633 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 879090003634 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 879090003635 catalytic triad [active] 879090003636 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 879090003637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 879090003638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 879090003639 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 879090003640 AAA domain; Region: AAA_17; pfam13207 879090003641 Predicted transcriptional regulators [Transcription]; Region: COG1695 879090003642 Transcriptional regulator PadR-like family; Region: PadR; cl17335 879090003643 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 879090003644 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 879090003645 SH3-like domain; Region: SH3_8; pfam13457 879090003646 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 879090003647 SH3-like domain; Region: SH3_8; pfam13457 879090003648 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 879090003649 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 879090003650 oligomer interface [polypeptide binding]; other site 879090003651 active site 879090003652 metal binding site [ion binding]; metal-binding site 879090003653 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 879090003654 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 879090003655 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 879090003656 Predicted transcriptional regulators [Transcription]; Region: COG1733 879090003657 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 879090003658 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 879090003659 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 879090003660 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 879090003661 dimer interface [polypeptide binding]; other site 879090003662 motif 1; other site 879090003663 active site 879090003664 motif 2; other site 879090003665 motif 3; other site 879090003666 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 879090003667 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 879090003668 putative tRNA-binding site [nucleotide binding]; other site 879090003669 B3/4 domain; Region: B3_4; pfam03483 879090003670 tRNA synthetase B5 domain; Region: B5; smart00874 879090003671 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 879090003672 dimer interface [polypeptide binding]; other site 879090003673 motif 1; other site 879090003674 motif 3; other site 879090003675 motif 2; other site 879090003676 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 879090003677 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090003678 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090003679 Walker A/P-loop; other site 879090003680 ATP binding site [chemical binding]; other site 879090003681 Q-loop/lid; other site 879090003682 ABC transporter signature motif; other site 879090003683 Walker B; other site 879090003684 D-loop; other site 879090003685 H-loop/switch region; other site 879090003686 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879090003687 FtsX-like permease family; Region: FtsX; pfam02687 879090003688 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 879090003689 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879090003690 FtsX-like permease family; Region: FtsX; pfam02687 879090003691 Transcriptional regulators [Transcription]; Region: MarR; COG1846 879090003692 MarR family; Region: MarR_2; pfam12802 879090003693 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 879090003694 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 879090003695 ligand binding site [chemical binding]; other site 879090003696 active site 879090003697 UGI interface [polypeptide binding]; other site 879090003698 catalytic site [active] 879090003699 ribonuclease HIII; Provisional; Region: PRK00996 879090003700 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 879090003701 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 879090003702 RNA/DNA hybrid binding site [nucleotide binding]; other site 879090003703 active site 879090003704 Cell division protein ZapA; Region: ZapA; cl01146 879090003705 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 879090003706 Colicin V production protein; Region: Colicin_V; pfam02674 879090003707 hypothetical protein; Provisional; Region: PRK08609 879090003708 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 879090003709 active site 879090003710 primer binding site [nucleotide binding]; other site 879090003711 NTP binding site [chemical binding]; other site 879090003712 metal binding triad [ion binding]; metal-binding site 879090003713 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 879090003714 active site 879090003715 MutS domain III; Region: MutS_III; pfam05192 879090003716 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 879090003717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090003718 Walker A/P-loop; other site 879090003719 ATP binding site [chemical binding]; other site 879090003720 Q-loop/lid; other site 879090003721 ABC transporter signature motif; other site 879090003722 Walker B; other site 879090003723 D-loop; other site 879090003724 H-loop/switch region; other site 879090003725 Smr domain; Region: Smr; pfam01713 879090003726 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 879090003727 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879090003728 catalytic residues [active] 879090003729 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 879090003730 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 879090003731 GIY-YIG motif/motif A; other site 879090003732 active site 879090003733 catalytic site [active] 879090003734 putative DNA binding site [nucleotide binding]; other site 879090003735 metal binding site [ion binding]; metal-binding site 879090003736 UvrB/uvrC motif; Region: UVR; pfam02151 879090003737 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 879090003738 aspartate kinase; Reviewed; Region: PRK06635 879090003739 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 879090003740 putative nucleotide binding site [chemical binding]; other site 879090003741 putative catalytic residues [active] 879090003742 putative Mg ion binding site [ion binding]; other site 879090003743 putative aspartate binding site [chemical binding]; other site 879090003744 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 879090003745 putative allosteric regulatory site; other site 879090003746 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 879090003747 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 879090003748 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 879090003749 ribonuclease PH; Reviewed; Region: rph; PRK00173 879090003750 Ribonuclease PH; Region: RNase_PH_bact; cd11362 879090003751 hexamer interface [polypeptide binding]; other site 879090003752 active site 879090003753 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 879090003754 active site 879090003755 dimerization interface [polypeptide binding]; other site 879090003756 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 879090003757 active site 879090003758 metal binding site [ion binding]; metal-binding site 879090003759 homotetramer interface [polypeptide binding]; other site 879090003760 Uncharacterized conserved protein [Function unknown]; Region: COG5361 879090003761 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 879090003762 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 879090003763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 879090003764 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 879090003765 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 879090003766 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 879090003767 dimer interface [polypeptide binding]; other site 879090003768 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 879090003769 catalytic core [active] 879090003770 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 879090003771 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 879090003772 ATP binding site [chemical binding]; other site 879090003773 Mg++ binding site [ion binding]; other site 879090003774 motif III; other site 879090003775 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 879090003776 nucleotide binding region [chemical binding]; other site 879090003777 ATP-binding site [chemical binding]; other site 879090003778 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 879090003779 RNA binding site [nucleotide binding]; other site 879090003780 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 879090003781 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 879090003782 putative active site [active] 879090003783 nucleotide binding site [chemical binding]; other site 879090003784 nudix motif; other site 879090003785 putative metal binding site [ion binding]; other site 879090003786 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 879090003787 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090003788 putative substrate translocation pore; other site 879090003789 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090003790 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090003791 ligand binding site [chemical binding]; other site 879090003792 flexible hinge region; other site 879090003793 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 879090003794 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879090003795 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879090003796 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879090003797 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 879090003798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090003799 DNA-binding site [nucleotide binding]; DNA binding site 879090003800 UTRA domain; Region: UTRA; pfam07702 879090003801 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 879090003802 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 879090003803 Ca binding site [ion binding]; other site 879090003804 active site 879090003805 catalytic site [active] 879090003806 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 879090003807 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 879090003808 active site turn [active] 879090003809 phosphorylation site [posttranslational modification] 879090003810 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 879090003811 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 879090003812 nudix motif; other site 879090003813 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 879090003814 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 879090003815 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 879090003816 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 879090003817 putative catalytic cysteine [active] 879090003818 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 879090003819 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 879090003820 nucleotide binding site [chemical binding]; other site 879090003821 homotetrameric interface [polypeptide binding]; other site 879090003822 putative phosphate binding site [ion binding]; other site 879090003823 putative allosteric binding site; other site 879090003824 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 879090003825 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 879090003826 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879090003827 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 879090003828 non-specific DNA binding site [nucleotide binding]; other site 879090003829 salt bridge; other site 879090003830 sequence-specific DNA binding site [nucleotide binding]; other site 879090003831 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 879090003832 non-specific DNA binding site [nucleotide binding]; other site 879090003833 salt bridge; other site 879090003834 sequence-specific DNA binding site [nucleotide binding]; other site 879090003835 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 879090003836 active site 879090003837 trigger factor; Provisional; Region: tig; PRK01490 879090003838 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 879090003839 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 879090003840 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 879090003841 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 879090003842 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 879090003843 Walker A motif; other site 879090003844 ATP binding site [chemical binding]; other site 879090003845 Walker B motif; other site 879090003846 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 879090003847 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 879090003848 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 879090003849 Catalytic site [active] 879090003850 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 879090003851 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 879090003852 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 879090003853 Catalytic site [active] 879090003854 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 879090003855 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 879090003856 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 879090003857 Catalytic site [active] 879090003858 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 879090003859 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 879090003860 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 879090003861 GTP/Mg2+ binding site [chemical binding]; other site 879090003862 G4 box; other site 879090003863 G5 box; other site 879090003864 G1 box; other site 879090003865 Switch I region; other site 879090003866 G2 box; other site 879090003867 G3 box; other site 879090003868 Switch II region; other site 879090003869 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 879090003870 RNA/DNA hybrid binding site [nucleotide binding]; other site 879090003871 active site 879090003872 DNA protecting protein DprA; Region: dprA; TIGR00732 879090003873 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 879090003874 DNA topoisomerase I; Validated; Region: PRK05582 879090003875 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 879090003876 active site 879090003877 interdomain interaction site; other site 879090003878 putative metal-binding site [ion binding]; other site 879090003879 nucleotide binding site [chemical binding]; other site 879090003880 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 879090003881 domain I; other site 879090003882 DNA binding groove [nucleotide binding] 879090003883 phosphate binding site [ion binding]; other site 879090003884 domain II; other site 879090003885 domain III; other site 879090003886 nucleotide binding site [chemical binding]; other site 879090003887 catalytic site [active] 879090003888 domain IV; other site 879090003889 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 879090003890 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 879090003891 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 879090003892 Glucose inhibited division protein A; Region: GIDA; pfam01134 879090003893 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 879090003894 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 879090003895 active site 879090003896 DNA binding site [nucleotide binding] 879090003897 Int/Topo IB signature motif; other site 879090003898 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 879090003899 active site 879090003900 HslU subunit interaction site [polypeptide binding]; other site 879090003901 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 879090003902 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 879090003903 Walker A motif; other site 879090003904 ATP binding site [chemical binding]; other site 879090003905 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 879090003906 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 879090003907 transcriptional repressor CodY; Validated; Region: PRK04158 879090003908 CodY GAF-like domain; Region: CodY; pfam06018 879090003909 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 879090003910 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 879090003911 active site 879090003912 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 879090003913 active site 879090003914 catalytic residues [active] 879090003915 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 879090003916 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 879090003917 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 879090003918 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 879090003919 Mg2+ binding site [ion binding]; other site 879090003920 G-X-G motif; other site 879090003921 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 879090003922 anchoring element; other site 879090003923 dimer interface [polypeptide binding]; other site 879090003924 ATP binding site [chemical binding]; other site 879090003925 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 879090003926 active site 879090003927 putative metal-binding site [ion binding]; other site 879090003928 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 879090003929 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 879090003930 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 879090003931 CAP-like domain; other site 879090003932 active site 879090003933 primary dimer interface [polypeptide binding]; other site 879090003934 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879090003935 S-ribosylhomocysteinase; Provisional; Region: PRK02260 879090003936 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090003937 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090003938 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 879090003939 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 879090003940 catalytic triad [active] 879090003941 catalytic triad [active] 879090003942 oxyanion hole [active] 879090003943 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 879090003944 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 879090003945 active site 879090003946 catalytic site [active] 879090003947 metal binding site [ion binding]; metal-binding site 879090003948 dimer interface [polypeptide binding]; other site 879090003949 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 879090003950 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 879090003951 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 879090003952 bacterial Hfq-like; Region: Hfq; cd01716 879090003953 hexamer interface [polypeptide binding]; other site 879090003954 Sm1 motif; other site 879090003955 RNA binding site [nucleotide binding]; other site 879090003956 Sm2 motif; other site 879090003957 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 879090003958 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 879090003959 HflX GTPase family; Region: HflX; cd01878 879090003960 G1 box; other site 879090003961 GTP/Mg2+ binding site [chemical binding]; other site 879090003962 Switch I region; other site 879090003963 G2 box; other site 879090003964 G3 box; other site 879090003965 Switch II region; other site 879090003966 G4 box; other site 879090003967 G5 box; other site 879090003968 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 879090003969 Aluminium resistance protein; Region: Alum_res; pfam06838 879090003970 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 879090003971 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 879090003972 DNA binding residues [nucleotide binding] 879090003973 putative dimer interface [polypeptide binding]; other site 879090003974 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 879090003975 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 879090003976 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 879090003977 arsenical pump membrane protein; Provisional; Region: PRK15445 879090003978 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 879090003979 transmembrane helices; other site 879090003980 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 879090003981 LexA repressor; Validated; Region: PRK00215 879090003982 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 879090003983 putative DNA binding site [nucleotide binding]; other site 879090003984 putative Zn2+ binding site [ion binding]; other site 879090003985 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 879090003986 Catalytic site [active] 879090003987 cell division suppressor protein YneA; Provisional; Region: PRK14125 879090003988 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 879090003989 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 879090003990 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 879090003991 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 879090003992 TPP-binding site [chemical binding]; other site 879090003993 dimer interface [polypeptide binding]; other site 879090003994 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 879090003995 PYR/PP interface [polypeptide binding]; other site 879090003996 dimer interface [polypeptide binding]; other site 879090003997 TPP binding site [chemical binding]; other site 879090003998 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879090003999 hypothetical protein; Provisional; Region: PRK01844 879090004000 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 879090004001 Protein of unknown function (DUF970); Region: DUF970; cl17525 879090004002 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 879090004003 Methyltransferase domain; Region: Methyltransf_31; pfam13847 879090004004 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 879090004005 S-adenosylmethionine binding site [chemical binding]; other site 879090004006 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 879090004007 ParB-like nuclease domain; Region: ParBc; pfam02195 879090004008 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 879090004009 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 879090004010 Active Sites [active] 879090004011 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 879090004012 DEAD-like helicases superfamily; Region: DEXDc; smart00487 879090004013 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 879090004014 putative nucleotide binding site [chemical binding]; other site 879090004015 uridine monophosphate binding site [chemical binding]; other site 879090004016 homohexameric interface [polypeptide binding]; other site 879090004017 ribosome recycling factor; Reviewed; Region: frr; PRK00083 879090004018 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 879090004019 hinge region; other site 879090004020 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 879090004021 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 879090004022 catalytic residue [active] 879090004023 putative FPP diphosphate binding site; other site 879090004024 putative FPP binding hydrophobic cleft; other site 879090004025 dimer interface [polypeptide binding]; other site 879090004026 putative IPP diphosphate binding site; other site 879090004027 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 879090004028 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 879090004029 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 879090004030 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 879090004031 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 879090004032 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 879090004033 RIP metalloprotease RseP; Region: TIGR00054 879090004034 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 879090004035 active site 879090004036 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 879090004037 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 879090004038 protein binding site [polypeptide binding]; other site 879090004039 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 879090004040 putative substrate binding region [chemical binding]; other site 879090004041 prolyl-tRNA synthetase; Provisional; Region: PRK09194 879090004042 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 879090004043 dimer interface [polypeptide binding]; other site 879090004044 motif 1; other site 879090004045 active site 879090004046 motif 2; other site 879090004047 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 879090004048 putative deacylase active site [active] 879090004049 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 879090004050 active site 879090004051 motif 3; other site 879090004052 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 879090004053 anticodon binding site; other site 879090004054 DNA polymerase III PolC; Validated; Region: polC; PRK00448 879090004055 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 879090004056 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 879090004057 generic binding surface II; other site 879090004058 generic binding surface I; other site 879090004059 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 879090004060 active site 879090004061 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 879090004062 active site 879090004063 catalytic site [active] 879090004064 substrate binding site [chemical binding]; other site 879090004065 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 879090004066 ribosome maturation protein RimP; Reviewed; Region: PRK00092 879090004067 Sm and related proteins; Region: Sm_like; cl00259 879090004068 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 879090004069 putative oligomer interface [polypeptide binding]; other site 879090004070 putative RNA binding site [nucleotide binding]; other site 879090004071 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 879090004072 NusA N-terminal domain; Region: NusA_N; pfam08529 879090004073 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 879090004074 RNA binding site [nucleotide binding]; other site 879090004075 homodimer interface [polypeptide binding]; other site 879090004076 NusA-like KH domain; Region: KH_5; pfam13184 879090004077 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 879090004078 G-X-X-G motif; other site 879090004079 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 879090004080 putative RNA binding cleft [nucleotide binding]; other site 879090004081 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 879090004082 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 879090004083 translation initiation factor IF-2; Region: IF-2; TIGR00487 879090004084 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 879090004085 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 879090004086 G1 box; other site 879090004087 putative GEF interaction site [polypeptide binding]; other site 879090004088 GTP/Mg2+ binding site [chemical binding]; other site 879090004089 Switch I region; other site 879090004090 G2 box; other site 879090004091 G3 box; other site 879090004092 Switch II region; other site 879090004093 G4 box; other site 879090004094 G5 box; other site 879090004095 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 879090004096 Translation-initiation factor 2; Region: IF-2; pfam11987 879090004097 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 879090004098 Protein of unknown function (DUF503); Region: DUF503; cl00669 879090004099 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 879090004100 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 879090004101 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 879090004102 RNA binding site [nucleotide binding]; other site 879090004103 active site 879090004104 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 879090004105 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 879090004106 active site 879090004107 Riboflavin kinase; Region: Flavokinase; smart00904 879090004108 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 879090004109 16S/18S rRNA binding site [nucleotide binding]; other site 879090004110 S13e-L30e interaction site [polypeptide binding]; other site 879090004111 25S rRNA binding site [nucleotide binding]; other site 879090004112 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 879090004113 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 879090004114 RNase E interface [polypeptide binding]; other site 879090004115 trimer interface [polypeptide binding]; other site 879090004116 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 879090004117 RNase E interface [polypeptide binding]; other site 879090004118 trimer interface [polypeptide binding]; other site 879090004119 active site 879090004120 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 879090004121 putative nucleic acid binding region [nucleotide binding]; other site 879090004122 G-X-X-G motif; other site 879090004123 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 879090004124 RNA binding site [nucleotide binding]; other site 879090004125 domain interface; other site 879090004126 GTPase RsgA; Reviewed; Region: PRK01889 879090004127 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 879090004128 RNA binding site [nucleotide binding]; other site 879090004129 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 879090004130 GTPase/Zn-binding domain interface [polypeptide binding]; other site 879090004131 GTP/Mg2+ binding site [chemical binding]; other site 879090004132 G4 box; other site 879090004133 G5 box; other site 879090004134 G1 box; other site 879090004135 Switch I region; other site 879090004136 G2 box; other site 879090004137 G3 box; other site 879090004138 Switch II region; other site 879090004139 YceG-like family; Region: YceG; pfam02618 879090004140 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 879090004141 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 879090004142 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 879090004143 Rhomboid family; Region: Rhomboid; pfam01694 879090004144 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 879090004145 TPR motif; other site 879090004146 TPR repeat; Region: TPR_11; pfam13414 879090004147 binding surface 879090004148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4483 879090004149 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 879090004150 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090004151 nucleotide binding site [chemical binding]; other site 879090004152 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 879090004153 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 879090004154 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 879090004155 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 879090004156 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 879090004157 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 879090004158 Type II/IV secretion system protein; Region: T2SE; pfam00437 879090004159 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 879090004160 Walker A motif; other site 879090004161 ATP binding site [chemical binding]; other site 879090004162 Walker B motif; other site 879090004163 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 879090004164 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 879090004165 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 879090004166 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 879090004167 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 879090004168 tetramer interface [polypeptide binding]; other site 879090004169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090004170 catalytic residue [active] 879090004171 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 879090004172 tetramer interface [polypeptide binding]; other site 879090004173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090004174 catalytic residue [active] 879090004175 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 879090004176 active site residue [active] 879090004177 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 879090004178 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 879090004179 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 879090004180 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 879090004181 active site 879090004182 elongation factor P; Validated; Region: PRK00529 879090004183 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 879090004184 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 879090004185 RNA binding site [nucleotide binding]; other site 879090004186 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 879090004187 RNA binding site [nucleotide binding]; other site 879090004188 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 879090004189 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 879090004190 carboxyltransferase (CT) interaction site; other site 879090004191 biotinylation site [posttranslational modification]; other site 879090004192 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 879090004193 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 879090004194 ATP-grasp domain; Region: ATP-grasp_4; cl17255 879090004195 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 879090004196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 879090004197 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 879090004198 putative RNA binding site [nucleotide binding]; other site 879090004199 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14170 879090004200 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 879090004201 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 879090004202 homodimer interface [polypeptide binding]; other site 879090004203 NADP binding site [chemical binding]; other site 879090004204 substrate binding site [chemical binding]; other site 879090004205 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 879090004206 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 879090004207 generic binding surface II; other site 879090004208 generic binding surface I; other site 879090004209 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14064 879090004210 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 879090004211 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 879090004212 substrate binding pocket [chemical binding]; other site 879090004213 chain length determination region; other site 879090004214 substrate-Mg2+ binding site; other site 879090004215 catalytic residues [active] 879090004216 aspartate-rich region 1; other site 879090004217 active site lid residues [active] 879090004218 aspartate-rich region 2; other site 879090004219 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 879090004220 DNA-binding site [nucleotide binding]; DNA binding site 879090004221 RNA-binding motif; other site 879090004222 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 879090004223 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 879090004224 TPP-binding site; other site 879090004225 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 879090004226 PYR/PP interface [polypeptide binding]; other site 879090004227 dimer interface [polypeptide binding]; other site 879090004228 TPP binding site [chemical binding]; other site 879090004229 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879090004230 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 879090004231 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 879090004232 RNA binding surface [nucleotide binding]; other site 879090004233 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 879090004234 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 879090004235 arginine repressor; Provisional; Region: PRK04280 879090004236 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 879090004237 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 879090004238 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 879090004239 Walker A/P-loop; other site 879090004240 ATP binding site [chemical binding]; other site 879090004241 Q-loop/lid; other site 879090004242 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 879090004243 ABC transporter signature motif; other site 879090004244 Walker B; other site 879090004245 D-loop; other site 879090004246 H-loop/switch region; other site 879090004247 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 879090004248 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090004249 nucleotide binding site [chemical binding]; other site 879090004250 Acetokinase family; Region: Acetate_kinase; cl17229 879090004251 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 879090004252 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090004253 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 879090004254 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 879090004255 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 879090004256 tetramer interface [polypeptide binding]; other site 879090004257 TPP-binding site [chemical binding]; other site 879090004258 heterodimer interface [polypeptide binding]; other site 879090004259 phosphorylation loop region [posttranslational modification] 879090004260 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 879090004261 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 879090004262 alpha subunit interface [polypeptide binding]; other site 879090004263 TPP binding site [chemical binding]; other site 879090004264 heterodimer interface [polypeptide binding]; other site 879090004265 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879090004266 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 879090004267 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 879090004268 E3 interaction surface; other site 879090004269 lipoyl attachment site [posttranslational modification]; other site 879090004270 e3 binding domain; Region: E3_binding; pfam02817 879090004271 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 879090004272 peptidase T-like protein; Region: PepT-like; TIGR01883 879090004273 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 879090004274 metal binding site [ion binding]; metal-binding site 879090004275 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 879090004276 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 879090004277 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 879090004278 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090004279 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 879090004280 active site 879090004281 phosphorylation site [posttranslational modification] 879090004282 intermolecular recognition site; other site 879090004283 dimerization interface [polypeptide binding]; other site 879090004284 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 879090004285 DNA binding site [nucleotide binding] 879090004286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 879090004287 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 879090004288 dimerization interface [polypeptide binding]; other site 879090004289 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 879090004290 dimer interface [polypeptide binding]; other site 879090004291 phosphorylation site [posttranslational modification] 879090004292 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 879090004293 ATP binding site [chemical binding]; other site 879090004294 Mg2+ binding site [ion binding]; other site 879090004295 G-X-G motif; other site 879090004296 OxaA-like protein precursor; Validated; Region: PRK01622 879090004297 acylphosphatase; Provisional; Region: PRK14443 879090004298 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 879090004299 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 879090004300 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 879090004301 homotetramer interface [polypeptide binding]; other site 879090004302 FMN binding site [chemical binding]; other site 879090004303 homodimer contacts [polypeptide binding]; other site 879090004304 putative active site [active] 879090004305 putative substrate binding site [chemical binding]; other site 879090004306 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 879090004307 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 879090004308 active site residue [active] 879090004309 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 879090004310 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879090004311 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879090004312 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879090004313 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 879090004314 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 879090004315 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 879090004316 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 879090004317 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06928 879090004318 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 879090004319 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 879090004320 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 879090004321 ligand binding site [chemical binding]; other site 879090004322 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 879090004323 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 879090004324 Walker A/P-loop; other site 879090004325 ATP binding site [chemical binding]; other site 879090004326 Q-loop/lid; other site 879090004327 ABC transporter signature motif; other site 879090004328 Walker B; other site 879090004329 D-loop; other site 879090004330 H-loop/switch region; other site 879090004331 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 879090004332 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 879090004333 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 879090004334 TM-ABC transporter signature motif; other site 879090004335 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 879090004336 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 879090004337 TM-ABC transporter signature motif; other site 879090004338 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 879090004339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 879090004340 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 879090004341 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 879090004342 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 879090004343 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 879090004344 classical (c) SDRs; Region: SDR_c; cd05233 879090004345 NAD(P) binding site [chemical binding]; other site 879090004346 active site 879090004347 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 879090004348 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 879090004349 non-specific DNA binding site [nucleotide binding]; other site 879090004350 salt bridge; other site 879090004351 sequence-specific DNA binding site [nucleotide binding]; other site 879090004352 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 879090004353 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 879090004354 competence damage-inducible protein A; Provisional; Region: PRK00549 879090004355 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 879090004356 putative MPT binding site; other site 879090004357 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 879090004358 recombinase A; Provisional; Region: recA; PRK09354 879090004359 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 879090004360 hexamer interface [polypeptide binding]; other site 879090004361 Walker A motif; other site 879090004362 ATP binding site [chemical binding]; other site 879090004363 Walker B motif; other site 879090004364 phosphodiesterase; Provisional; Region: PRK12704 879090004365 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090004366 Zn2+ binding site [ion binding]; other site 879090004367 Mg2+ binding site [ion binding]; other site 879090004368 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 879090004369 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090004370 Coenzyme A binding pocket [chemical binding]; other site 879090004371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 879090004372 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 879090004373 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 879090004374 putative active site [active] 879090004375 metal binding site [ion binding]; metal-binding site 879090004376 homodimer binding site [polypeptide binding]; other site 879090004377 Predicted membrane protein [Function unknown]; Region: COG4550 879090004378 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 879090004379 MutS domain I; Region: MutS_I; pfam01624 879090004380 MutS domain II; Region: MutS_II; pfam05188 879090004381 MutS domain III; Region: MutS_III; pfam05192 879090004382 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 879090004383 Walker A/P-loop; other site 879090004384 ATP binding site [chemical binding]; other site 879090004385 Q-loop/lid; other site 879090004386 ABC transporter signature motif; other site 879090004387 Walker B; other site 879090004388 D-loop; other site 879090004389 H-loop/switch region; other site 879090004390 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 879090004391 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 879090004392 ATP binding site [chemical binding]; other site 879090004393 Mg2+ binding site [ion binding]; other site 879090004394 G-X-G motif; other site 879090004395 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 879090004396 ATP binding site [chemical binding]; other site 879090004397 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 879090004398 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 879090004399 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 879090004400 Pyruvate formate lyase 1; Region: PFL1; cd01678 879090004401 coenzyme A binding site [chemical binding]; other site 879090004402 active site 879090004403 catalytic residues [active] 879090004404 glycine loop; other site 879090004405 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 879090004406 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 879090004407 FeS/SAM binding site; other site 879090004408 Predicted transcriptional regulators [Transcription]; Region: COG1695 879090004409 Transcriptional regulator PadR-like family; Region: PadR; cl17335 879090004410 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 879090004411 putative substrate translocation pore; other site 879090004412 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 879090004413 non-specific DNA binding site [nucleotide binding]; other site 879090004414 salt bridge; other site 879090004415 sequence-specific DNA binding site [nucleotide binding]; other site 879090004416 topology modulation protein; Provisional; Region: PRK07261 879090004417 AAA domain; Region: AAA_17; pfam13207 879090004418 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090004419 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090004420 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090004421 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090004422 putative acyltransferase; Provisional; Region: PRK05790 879090004423 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 879090004424 dimer interface [polypeptide binding]; other site 879090004425 active site 879090004426 "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 879090004427 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 879090004428 dimer interface [polypeptide binding]; other site 879090004429 active site 879090004430 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 879090004431 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 879090004432 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 879090004433 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 879090004434 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 879090004435 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 879090004436 Domain of unknown function DUF20; Region: UPF0118; pfam01594 879090004437 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 879090004438 FAD binding domain; Region: FAD_binding_4; pfam01565 879090004439 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 879090004440 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 879090004441 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 879090004442 Walker A/P-loop; other site 879090004443 ATP binding site [chemical binding]; other site 879090004444 Q-loop/lid; other site 879090004445 ABC transporter signature motif; other site 879090004446 Walker B; other site 879090004447 D-loop; other site 879090004448 H-loop/switch region; other site 879090004449 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 879090004450 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090004451 dimer interface [polypeptide binding]; other site 879090004452 conserved gate region; other site 879090004453 ABC-ATPase subunit interface; other site 879090004454 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 879090004455 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 879090004456 manganese transport protein MntH; Reviewed; Region: PRK00701 879090004457 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 879090004458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090004459 dimer interface [polypeptide binding]; other site 879090004460 conserved gate region; other site 879090004461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 879090004462 ABC-ATPase subunit interface; other site 879090004463 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 879090004464 LysR substrate binding domain; Region: LysR_substrate; pfam03466 879090004465 dimerization interface [polypeptide binding]; other site 879090004466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090004467 dimer interface [polypeptide binding]; other site 879090004468 conserved gate region; other site 879090004469 putative PBP binding loops; other site 879090004470 ABC-ATPase subunit interface; other site 879090004471 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 879090004472 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 879090004473 Walker A/P-loop; other site 879090004474 ATP binding site [chemical binding]; other site 879090004475 Q-loop/lid; other site 879090004476 ABC transporter signature motif; other site 879090004477 Walker B; other site 879090004478 D-loop; other site 879090004479 H-loop/switch region; other site 879090004480 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 879090004481 Predicted membrane protein [Function unknown]; Region: COG3859 879090004482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 879090004483 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 879090004484 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090004485 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090004486 ABC transporter; Region: ABC_tran_2; pfam12848 879090004487 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090004488 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 879090004489 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879090004490 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090004491 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 879090004492 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 879090004493 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 879090004494 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 879090004495 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 879090004496 dihydrodipicolinate synthase; Region: dapA; TIGR00674 879090004497 dimer interface [polypeptide binding]; other site 879090004498 active site 879090004499 catalytic residue [active] 879090004500 aspartate kinase I; Reviewed; Region: PRK08210 879090004501 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 879090004502 nucleotide binding site [chemical binding]; other site 879090004503 substrate binding site [chemical binding]; other site 879090004504 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 879090004505 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 879090004506 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 879090004507 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 879090004508 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 879090004509 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 879090004510 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 879090004511 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 879090004512 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 879090004513 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 879090004514 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 879090004515 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 879090004516 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 879090004517 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 879090004518 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 879090004519 Predicted membrane protein [Function unknown]; Region: COG4392 879090004520 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 879090004521 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 879090004522 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 879090004523 metal binding site 2 [ion binding]; metal-binding site 879090004524 putative DNA binding helix; other site 879090004525 metal binding site 1 [ion binding]; metal-binding site 879090004526 dimer interface [polypeptide binding]; other site 879090004527 structural Zn2+ binding site [ion binding]; other site 879090004528 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 879090004529 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 879090004530 ABC-ATPase subunit interface; other site 879090004531 dimer interface [polypeptide binding]; other site 879090004532 putative PBP binding regions; other site 879090004533 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 879090004534 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 879090004535 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 879090004536 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 879090004537 DHHA2 domain; Region: DHHA2; pfam02833 879090004538 endonuclease IV; Provisional; Region: PRK01060 879090004539 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 879090004540 AP (apurinic/apyrimidinic) site pocket; other site 879090004541 DNA interaction; other site 879090004542 Metal-binding active site; metal-binding site 879090004543 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 879090004544 DEAD-like helicases superfamily; Region: DEXDc; smart00487 879090004545 ATP binding site [chemical binding]; other site 879090004546 Mg++ binding site [ion binding]; other site 879090004547 motif III; other site 879090004548 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 879090004549 nucleotide binding region [chemical binding]; other site 879090004550 ATP-binding site [chemical binding]; other site 879090004551 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 879090004552 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 879090004553 Uncharacterized conserved protein [Function unknown]; Region: COG0327 879090004554 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 879090004555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 879090004556 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 879090004557 Uncharacterized conserved protein [Function unknown]; Region: COG0327 879090004558 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 879090004559 Family of unknown function (DUF633); Region: DUF633; pfam04816 879090004560 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 879090004561 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 879090004562 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 879090004563 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879090004564 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 879090004565 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 879090004566 DNA binding residues [nucleotide binding] 879090004567 DNA primase; Validated; Region: dnaG; PRK05667 879090004568 CHC2 zinc finger; Region: zf-CHC2; pfam01807 879090004569 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 879090004570 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 879090004571 active site 879090004572 metal binding site [ion binding]; metal-binding site 879090004573 interdomain interaction site; other site 879090004574 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 879090004575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 879090004576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 879090004577 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 879090004578 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 879090004579 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 879090004580 dimer interface [polypeptide binding]; other site 879090004581 motif 1; other site 879090004582 active site 879090004583 motif 2; other site 879090004584 motif 3; other site 879090004585 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 879090004586 Recombination protein O N terminal; Region: RecO_N; pfam11967 879090004587 Recombination protein O C terminal; Region: RecO_C; pfam02565 879090004588 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 879090004589 GTPase Era; Reviewed; Region: era; PRK00089 879090004590 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 879090004591 G1 box; other site 879090004592 GTP/Mg2+ binding site [chemical binding]; other site 879090004593 Switch I region; other site 879090004594 G2 box; other site 879090004595 Switch II region; other site 879090004596 G3 box; other site 879090004597 G4 box; other site 879090004598 G5 box; other site 879090004599 KH domain; Region: KH_2; pfam07650 879090004600 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 879090004601 active site 879090004602 catalytic motif [active] 879090004603 Zn binding site [ion binding]; other site 879090004604 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 879090004605 metal-binding heat shock protein; Provisional; Region: PRK00016 879090004606 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 879090004607 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 879090004608 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090004609 Zn2+ binding site [ion binding]; other site 879090004610 Mg2+ binding site [ion binding]; other site 879090004611 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 879090004612 PhoH-like protein; Region: PhoH; pfam02562 879090004613 Yqey-like protein; Region: YqeY; pfam09424 879090004614 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 879090004615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 879090004616 RNA methyltransferase, RsmE family; Region: TIGR00046 879090004617 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 879090004618 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 879090004619 S-adenosylmethionine binding site [chemical binding]; other site 879090004620 chaperone protein DnaJ; Provisional; Region: PRK14280 879090004621 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 879090004622 HSP70 interaction site [polypeptide binding]; other site 879090004623 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 879090004624 substrate binding site [polypeptide binding]; other site 879090004625 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 879090004626 Zn binding sites [ion binding]; other site 879090004627 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 879090004628 dimer interface [polypeptide binding]; other site 879090004629 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 879090004630 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 879090004631 nucleotide binding site [chemical binding]; other site 879090004632 NEF interaction site [polypeptide binding]; other site 879090004633 SBD interface [polypeptide binding]; other site 879090004634 heat shock protein GrpE; Provisional; Region: PRK14140 879090004635 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 879090004636 dimer interface [polypeptide binding]; other site 879090004637 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 879090004638 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 879090004639 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 879090004640 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 879090004641 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 879090004642 FeS/SAM binding site; other site 879090004643 HemN C-terminal domain; Region: HemN_C; pfam06969 879090004644 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 879090004645 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 879090004646 NADP binding site [chemical binding]; other site 879090004647 putative substrate binding site [chemical binding]; other site 879090004648 active site 879090004649 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 879090004650 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 879090004651 DNA binding residues [nucleotide binding] 879090004652 putative dimer interface [polypeptide binding]; other site 879090004653 GTP-binding protein LepA; Provisional; Region: PRK05433 879090004654 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 879090004655 G1 box; other site 879090004656 putative GEF interaction site [polypeptide binding]; other site 879090004657 GTP/Mg2+ binding site [chemical binding]; other site 879090004658 Switch I region; other site 879090004659 G2 box; other site 879090004660 G3 box; other site 879090004661 Switch II region; other site 879090004662 G4 box; other site 879090004663 G5 box; other site 879090004664 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 879090004665 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 879090004666 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 879090004667 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 879090004668 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 879090004669 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 879090004670 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 879090004671 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 879090004672 Competence protein; Region: Competence; pfam03772 879090004673 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 879090004674 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 879090004675 catalytic motif [active] 879090004676 Zn binding site [ion binding]; other site 879090004677 SLBB domain; Region: SLBB; pfam10531 879090004678 comEA protein; Region: comE; TIGR01259 879090004679 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 879090004680 Methyltransferase domain; Region: Methyltransf_31; pfam13847 879090004681 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 879090004682 S-adenosylmethionine binding site [chemical binding]; other site 879090004683 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 879090004684 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090004685 Zn2+ binding site [ion binding]; other site 879090004686 Mg2+ binding site [ion binding]; other site 879090004687 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 879090004688 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 879090004689 active site 879090004690 (T/H)XGH motif; other site 879090004691 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 879090004692 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 879090004693 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 879090004694 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 879090004695 shikimate binding site; other site 879090004696 NAD(P) binding site [chemical binding]; other site 879090004697 GTPase YqeH; Provisional; Region: PRK13796 879090004698 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 879090004699 GTP/Mg2+ binding site [chemical binding]; other site 879090004700 G4 box; other site 879090004701 G5 box; other site 879090004702 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 879090004703 G1 box; other site 879090004704 G1 box; other site 879090004705 GTP/Mg2+ binding site [chemical binding]; other site 879090004706 G2 box; other site 879090004707 Switch I region; other site 879090004708 G2 box; other site 879090004709 Switch I region; other site 879090004710 G3 box; other site 879090004711 G3 box; other site 879090004712 Switch II region; other site 879090004713 Switch II region; other site 879090004714 G4 box; other site 879090004715 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 879090004716 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 879090004717 motif II; other site 879090004718 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 879090004719 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 879090004720 active site 879090004721 Zn binding site [ion binding]; other site 879090004722 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 879090004723 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 879090004724 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 879090004725 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 879090004726 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 879090004727 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 879090004728 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 879090004729 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 879090004730 Sugar specificity; other site 879090004731 Pyrimidine base specificity; other site 879090004732 ATP-binding site [chemical binding]; other site 879090004733 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 879090004734 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 879090004735 S-adenosylmethionine binding site [chemical binding]; other site 879090004736 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 879090004737 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 879090004738 dimerization interface [polypeptide binding]; other site 879090004739 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 879090004740 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 879090004741 hypothetical protein; Provisional; Region: PRK13678 879090004742 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 879090004743 hypothetical protein; Provisional; Region: PRK05473 879090004744 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 879090004745 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 879090004746 motif 1; other site 879090004747 active site 879090004748 motif 2; other site 879090004749 motif 3; other site 879090004750 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 879090004751 DHHA1 domain; Region: DHHA1; pfam02272 879090004752 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090004753 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090004754 Walker A/P-loop; other site 879090004755 ATP binding site [chemical binding]; other site 879090004756 Q-loop/lid; other site 879090004757 ABC transporter signature motif; other site 879090004758 Walker B; other site 879090004759 D-loop; other site 879090004760 H-loop/switch region; other site 879090004761 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879090004762 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 879090004763 FtsX-like permease family; Region: FtsX; pfam02687 879090004764 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090004765 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 879090004766 active site 879090004767 phosphorylation site [posttranslational modification] 879090004768 intermolecular recognition site; other site 879090004769 dimerization interface [polypeptide binding]; other site 879090004770 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 879090004771 DNA binding site [nucleotide binding] 879090004772 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 879090004773 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 879090004774 dimerization interface [polypeptide binding]; other site 879090004775 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 879090004776 dimer interface [polypeptide binding]; other site 879090004777 phosphorylation site [posttranslational modification] 879090004778 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 879090004779 ATP binding site [chemical binding]; other site 879090004780 Mg2+ binding site [ion binding]; other site 879090004781 G-X-G motif; other site 879090004782 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 879090004783 AAA domain; Region: AAA_30; pfam13604 879090004784 Family description; Region: UvrD_C_2; pfam13538 879090004785 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 879090004786 binding surface 879090004787 TPR motif; other site 879090004788 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 879090004789 TPR repeat; Region: TPR_11; pfam13414 879090004790 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 879090004791 binding surface 879090004792 TPR motif; other site 879090004793 TPR repeat; Region: TPR_11; pfam13414 879090004794 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 879090004795 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 879090004796 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 879090004797 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 879090004798 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 879090004799 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879090004800 catalytic residue [active] 879090004801 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 879090004802 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 879090004803 Walker A motif; other site 879090004804 ATP binding site [chemical binding]; other site 879090004805 Walker B motif; other site 879090004806 arginine finger; other site 879090004807 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 879090004808 Predicted transcriptional regulator [Transcription]; Region: COG1959 879090004809 Transcriptional regulator; Region: Rrf2; pfam02082 879090004810 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 879090004811 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 879090004812 Nitrogen regulatory protein P-II; Region: P-II; smart00938 879090004813 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 879090004814 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 879090004815 dimer interface [polypeptide binding]; other site 879090004816 anticodon binding site; other site 879090004817 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 879090004818 homodimer interface [polypeptide binding]; other site 879090004819 motif 1; other site 879090004820 active site 879090004821 motif 2; other site 879090004822 GAD domain; Region: GAD; pfam02938 879090004823 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 879090004824 motif 3; other site 879090004825 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 879090004826 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 879090004827 dimer interface [polypeptide binding]; other site 879090004828 motif 1; other site 879090004829 active site 879090004830 motif 2; other site 879090004831 motif 3; other site 879090004832 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 879090004833 anticodon binding site; other site 879090004834 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 879090004835 Bacterial SH3 domain; Region: SH3_3; pfam08239 879090004836 Bacterial SH3 domain; Region: SH3_3; pfam08239 879090004837 Bacterial SH3 domain homologues; Region: SH3b; smart00287 879090004838 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 879090004839 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 879090004840 active site 879090004841 metal binding site [ion binding]; metal-binding site 879090004842 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 879090004843 putative active site [active] 879090004844 dimerization interface [polypeptide binding]; other site 879090004845 putative tRNAtyr binding site [nucleotide binding]; other site 879090004846 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 879090004847 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090004848 Zn2+ binding site [ion binding]; other site 879090004849 Mg2+ binding site [ion binding]; other site 879090004850 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 879090004851 synthetase active site [active] 879090004852 NTP binding site [chemical binding]; other site 879090004853 metal binding site [ion binding]; metal-binding site 879090004854 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 879090004855 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 879090004856 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090004857 active site 879090004858 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 879090004859 DHH family; Region: DHH; pfam01368 879090004860 DHHA1 domain; Region: DHHA1; pfam02272 879090004861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 879090004862 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 879090004863 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 879090004864 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 879090004865 Protein export membrane protein; Region: SecD_SecF; cl14618 879090004866 Protein export membrane protein; Region: SecD_SecF; pfam02355 879090004867 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 879090004868 Preprotein translocase subunit; Region: YajC; pfam02699 879090004869 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 879090004870 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 879090004871 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 879090004872 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 879090004873 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 879090004874 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 879090004875 Walker A motif; other site 879090004876 ATP binding site [chemical binding]; other site 879090004877 Walker B motif; other site 879090004878 arginine finger; other site 879090004879 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 879090004880 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 879090004881 RuvA N terminal domain; Region: RuvA_N; pfam01330 879090004882 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 879090004883 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 879090004884 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090004885 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 879090004886 NAD binding site [chemical binding]; other site 879090004887 dimer interface [polypeptide binding]; other site 879090004888 substrate binding site [chemical binding]; other site 879090004889 hypothetical protein; Validated; Region: PRK00110 879090004890 prephenate dehydratase; Provisional; Region: PRK11898 879090004891 Prephenate dehydratase; Region: PDT; pfam00800 879090004892 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 879090004893 putative L-Phe binding site [chemical binding]; other site 879090004894 GTPase CgtA; Reviewed; Region: obgE; PRK12297 879090004895 GTP1/OBG; Region: GTP1_OBG; pfam01018 879090004896 Obg GTPase; Region: Obg; cd01898 879090004897 G1 box; other site 879090004898 GTP/Mg2+ binding site [chemical binding]; other site 879090004899 Switch I region; other site 879090004900 G2 box; other site 879090004901 G3 box; other site 879090004902 Switch II region; other site 879090004903 G4 box; other site 879090004904 G5 box; other site 879090004905 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 879090004906 glycerol kinase; Provisional; Region: glpK; PRK00047 879090004907 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 879090004908 N- and C-terminal domain interface [polypeptide binding]; other site 879090004909 active site 879090004910 MgATP binding site [chemical binding]; other site 879090004911 catalytic site [active] 879090004912 metal binding site [ion binding]; metal-binding site 879090004913 glycerol binding site [chemical binding]; other site 879090004914 homotetramer interface [polypeptide binding]; other site 879090004915 homodimer interface [polypeptide binding]; other site 879090004916 FBP binding site [chemical binding]; other site 879090004917 protein IIAGlc interface [polypeptide binding]; other site 879090004918 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 879090004919 amphipathic channel; other site 879090004920 Asn-Pro-Ala signature motifs; other site 879090004921 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 879090004922 hypothetical protein; Provisional; Region: PRK14553 879090004923 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 879090004924 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 879090004925 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 879090004926 homodimer interface [polypeptide binding]; other site 879090004927 oligonucleotide binding site [chemical binding]; other site 879090004928 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 879090004929 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 879090004930 Switch I; other site 879090004931 Switch II; other site 879090004932 septum formation inhibitor; Reviewed; Region: minC; PRK00513 879090004933 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 879090004934 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 879090004935 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 879090004936 Protein of unknown function (DUF972); Region: DUF972; pfam06156 879090004937 rod shape-determining protein MreC; Region: MreC; pfam04085 879090004938 rod shape-determining protein MreB; Provisional; Region: PRK13927 879090004939 MreB and similar proteins; Region: MreB_like; cd10225 879090004940 nucleotide binding site [chemical binding]; other site 879090004941 Mg binding site [ion binding]; other site 879090004942 putative protofilament interaction site [polypeptide binding]; other site 879090004943 RodZ interaction site [polypeptide binding]; other site 879090004944 hypothetical protein; Reviewed; Region: PRK00024 879090004945 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 879090004946 MPN+ (JAMM) motif; other site 879090004947 Zinc-binding site [ion binding]; other site 879090004948 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 879090004949 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 879090004950 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 879090004951 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879090004952 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879090004953 AAA domain; Region: AAA_14; pfam13173 879090004954 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 879090004955 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879090004956 active site 879090004957 HIGH motif; other site 879090004958 nucleotide binding site [chemical binding]; other site 879090004959 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 879090004960 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 879090004961 active site 879090004962 KMSKS motif; other site 879090004963 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 879090004964 tRNA binding surface [nucleotide binding]; other site 879090004965 anticodon binding site; other site 879090004966 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 879090004967 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 879090004968 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 879090004969 inhibitor-cofactor binding pocket; inhibition site 879090004970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090004971 catalytic residue [active] 879090004972 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 879090004973 dimer interface [polypeptide binding]; other site 879090004974 active site 879090004975 Schiff base residues; other site 879090004976 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 879090004977 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 879090004978 active site 879090004979 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 879090004980 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 879090004981 domain interfaces; other site 879090004982 active site 879090004983 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 879090004984 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 879090004985 tRNA; other site 879090004986 putative tRNA binding site [nucleotide binding]; other site 879090004987 putative NADP binding site [chemical binding]; other site 879090004988 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 879090004989 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 879090004990 G1 box; other site 879090004991 GTP/Mg2+ binding site [chemical binding]; other site 879090004992 Switch I region; other site 879090004993 G2 box; other site 879090004994 G3 box; other site 879090004995 Switch II region; other site 879090004996 G4 box; other site 879090004997 G5 box; other site 879090004998 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 879090004999 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 879090005000 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 879090005001 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 879090005002 active site 879090005003 dimer interface [polypeptide binding]; other site 879090005004 motif 1; other site 879090005005 motif 2; other site 879090005006 motif 3; other site 879090005007 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 879090005008 anticodon binding site; other site 879090005009 primosomal protein DnaI; Reviewed; Region: PRK08939 879090005010 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 879090005011 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 879090005012 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 879090005013 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 879090005014 ATP cone domain; Region: ATP-cone; pfam03477 879090005015 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 879090005016 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 879090005017 CoA-binding site [chemical binding]; other site 879090005018 ATP-binding [chemical binding]; other site 879090005019 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 879090005020 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 879090005021 DNA binding site [nucleotide binding] 879090005022 catalytic residue [active] 879090005023 H2TH interface [polypeptide binding]; other site 879090005024 putative catalytic residues [active] 879090005025 turnover-facilitating residue; other site 879090005026 intercalation triad [nucleotide binding]; other site 879090005027 8OG recognition residue [nucleotide binding]; other site 879090005028 putative reading head residues; other site 879090005029 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 879090005030 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 879090005031 DNA polymerase I; Provisional; Region: PRK05755 879090005032 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 879090005033 active site 879090005034 metal binding site 1 [ion binding]; metal-binding site 879090005035 putative 5' ssDNA interaction site; other site 879090005036 metal binding site 3; metal-binding site 879090005037 metal binding site 2 [ion binding]; metal-binding site 879090005038 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 879090005039 putative DNA binding site [nucleotide binding]; other site 879090005040 putative metal binding site [ion binding]; other site 879090005041 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 879090005042 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 879090005043 active site 879090005044 DNA binding site [nucleotide binding] 879090005045 catalytic site [active] 879090005046 isocitrate dehydrogenase; Reviewed; Region: PRK07006 879090005047 isocitrate dehydrogenase; Validated; Region: PRK07362 879090005048 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 879090005049 dimer interface [polypeptide binding]; other site 879090005050 Citrate synthase; Region: Citrate_synt; pfam00285 879090005051 active site 879090005052 citrylCoA binding site [chemical binding]; other site 879090005053 oxalacetate/citrate binding site [chemical binding]; other site 879090005054 coenzyme A binding site [chemical binding]; other site 879090005055 catalytic triad [active] 879090005056 Protein of unknown function (DUF441); Region: DUF441; pfam04284 879090005057 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 879090005058 pyruvate kinase; Provisional; Region: PRK06354 879090005059 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 879090005060 domain interfaces; other site 879090005061 active site 879090005062 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 879090005063 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 879090005064 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 879090005065 active site 879090005066 ADP/pyrophosphate binding site [chemical binding]; other site 879090005067 dimerization interface [polypeptide binding]; other site 879090005068 allosteric effector site; other site 879090005069 fructose-1,6-bisphosphate binding site; other site 879090005070 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 879090005071 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 879090005072 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 879090005073 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 879090005074 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 879090005075 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 879090005076 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 879090005077 active site 879090005078 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 879090005079 generic binding surface I; other site 879090005080 generic binding surface II; other site 879090005081 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 879090005082 DHH family; Region: DHH; pfam01368 879090005083 DHHA1 domain; Region: DHHA1; pfam02272 879090005084 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 879090005085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 879090005086 DNA-binding site [nucleotide binding]; DNA binding site 879090005087 DRTGG domain; Region: DRTGG; pfam07085 879090005088 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 879090005089 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 879090005090 active site 2 [active] 879090005091 active site 1 [active] 879090005092 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 879090005093 metal-dependent hydrolase; Provisional; Region: PRK00685 879090005094 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 879090005095 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 879090005096 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 879090005097 active site 879090005098 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 879090005099 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 879090005100 hexamer interface [polypeptide binding]; other site 879090005101 ligand binding site [chemical binding]; other site 879090005102 putative active site [active] 879090005103 NAD(P) binding site [chemical binding]; other site 879090005104 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 879090005105 Ligand Binding Site [chemical binding]; other site 879090005106 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 879090005107 propionate/acetate kinase; Provisional; Region: PRK12379 879090005108 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 879090005109 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 879090005110 S-adenosylmethionine binding site [chemical binding]; other site 879090005111 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 879090005112 dimer interface [polypeptide binding]; other site 879090005113 catalytic triad [active] 879090005114 peroxidatic and resolving cysteines [active] 879090005115 RDD family; Region: RDD; pfam06271 879090005116 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 879090005117 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 879090005118 tandem repeat interface [polypeptide binding]; other site 879090005119 oligomer interface [polypeptide binding]; other site 879090005120 active site residues [active] 879090005121 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 879090005122 ATP-NAD kinase; Region: NAD_kinase; pfam01513 879090005123 ornithine carbamoyltransferase; Provisional; Region: PRK00779 879090005124 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 879090005125 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 879090005126 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 879090005127 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 879090005128 inhibitor-cofactor binding pocket; inhibition site 879090005129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090005130 catalytic residue [active] 879090005131 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 879090005132 nucleotide binding site [chemical binding]; other site 879090005133 N-acetyl-L-glutamate binding site [chemical binding]; other site 879090005134 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 879090005135 heterotetramer interface [polypeptide binding]; other site 879090005136 active site pocket [active] 879090005137 cleavage site 879090005138 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 879090005139 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 879090005140 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 879090005141 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 879090005142 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 879090005143 Ligand Binding Site [chemical binding]; other site 879090005144 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 879090005145 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 879090005146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879090005147 catalytic residue [active] 879090005148 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 879090005149 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 879090005150 GAF domain; Region: GAF_2; pfam13185 879090005151 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 879090005152 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 879090005153 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 879090005154 RNA binding surface [nucleotide binding]; other site 879090005155 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 879090005156 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 879090005157 active site 879090005158 HIGH motif; other site 879090005159 dimer interface [polypeptide binding]; other site 879090005160 KMSKS motif; other site 879090005161 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 879090005162 RNA binding surface [nucleotide binding]; other site 879090005163 catabolite control protein A; Region: ccpA; TIGR01481 879090005164 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090005165 DNA binding site [nucleotide binding] 879090005166 domain linker motif; other site 879090005167 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 879090005168 dimerization interface [polypeptide binding]; other site 879090005169 effector binding site; other site 879090005170 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 879090005171 Chorismate mutase type II; Region: CM_2; cl00693 879090005172 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 879090005173 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 879090005174 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 879090005175 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 879090005176 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 879090005177 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 879090005178 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 879090005179 dimer interface [polypeptide binding]; other site 879090005180 decamer (pentamer of dimers) interface [polypeptide binding]; other site 879090005181 catalytic triad [active] 879090005182 peroxidatic and resolving cysteines [active] 879090005183 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 879090005184 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 879090005185 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879090005186 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879090005187 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 879090005188 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 879090005189 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 879090005190 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 879090005191 putative tRNA-binding site [nucleotide binding]; other site 879090005192 hypothetical protein; Provisional; Region: PRK13668 879090005193 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 879090005194 catalytic residues [active] 879090005195 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 879090005196 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 879090005197 oligomer interface [polypeptide binding]; other site 879090005198 active site 879090005199 metal binding site [ion binding]; metal-binding site 879090005200 Predicted small secreted protein [Function unknown]; Region: COG5584 879090005201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1937 879090005202 putative homodimer interface [polypeptide binding]; other site 879090005203 putative homotetramer interface [polypeptide binding]; other site 879090005204 putative allosteric switch controlling residues; other site 879090005205 putative metal binding site [ion binding]; other site 879090005206 putative homodimer-homodimer interface [polypeptide binding]; other site 879090005207 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 879090005208 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 879090005209 S-adenosylmethionine binding site [chemical binding]; other site 879090005210 Phosphotransferase enzyme family; Region: APH; pfam01636 879090005211 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 879090005212 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 879090005213 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 879090005214 putative substrate translocation pore; other site 879090005215 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 879090005216 MarR family; Region: MarR; pfam01047 879090005217 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 879090005218 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 879090005219 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 879090005220 homodimer interface [polypeptide binding]; other site 879090005221 substrate-cofactor binding pocket; other site 879090005222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090005223 catalytic residue [active] 879090005224 dipeptidase PepV; Reviewed; Region: PRK07318 879090005225 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 879090005226 active site 879090005227 metal binding site [ion binding]; metal-binding site 879090005228 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 879090005229 nudix motif; other site 879090005230 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 879090005231 putative substrate binding site [chemical binding]; other site 879090005232 putative ATP binding site [chemical binding]; other site 879090005233 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 879090005234 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 879090005235 active site 879090005236 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 879090005237 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 879090005238 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 879090005239 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 879090005240 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 879090005241 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 879090005242 substrate binding site [chemical binding]; other site 879090005243 active site 879090005244 catalytic residues [active] 879090005245 heterodimer interface [polypeptide binding]; other site 879090005246 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 879090005247 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 879090005248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090005249 catalytic residue [active] 879090005250 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 879090005251 active site 879090005252 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 879090005253 active site 879090005254 ribulose/triose binding site [chemical binding]; other site 879090005255 phosphate binding site [ion binding]; other site 879090005256 substrate (anthranilate) binding pocket [chemical binding]; other site 879090005257 product (indole) binding pocket [chemical binding]; other site 879090005258 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 879090005259 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 879090005260 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 879090005261 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 879090005262 Glutamine amidotransferase class-I; Region: GATase; pfam00117 879090005263 glutamine binding [chemical binding]; other site 879090005264 catalytic triad [active] 879090005265 anthranilate synthase component I; Provisional; Region: PRK13570 879090005266 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 879090005267 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 879090005268 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 879090005269 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 879090005270 putative catalytic cysteine [active] 879090005271 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 879090005272 putative active site [active] 879090005273 metal binding site [ion binding]; metal-binding site 879090005274 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 879090005275 dimer interface [polypeptide binding]; other site 879090005276 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879090005277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090005278 Walker A/P-loop; other site 879090005279 ATP binding site [chemical binding]; other site 879090005280 Q-loop/lid; other site 879090005281 ABC transporter signature motif; other site 879090005282 Walker B; other site 879090005283 D-loop; other site 879090005284 H-loop/switch region; other site 879090005285 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 879090005286 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 879090005287 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 879090005288 putative dimer interface [polypeptide binding]; other site 879090005289 catalytic triad [active] 879090005290 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 879090005291 aconitate hydratase; Validated; Region: PRK09277 879090005292 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 879090005293 substrate binding site [chemical binding]; other site 879090005294 ligand binding site [chemical binding]; other site 879090005295 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 879090005296 substrate binding site [chemical binding]; other site 879090005297 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 879090005298 Heat induced stress protein YflT; Region: YflT; pfam11181 879090005299 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 879090005300 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 879090005301 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 879090005302 ATP binding site [chemical binding]; other site 879090005303 putative Mg++ binding site [ion binding]; other site 879090005304 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 879090005305 nucleotide binding region [chemical binding]; other site 879090005306 ATP-binding site [chemical binding]; other site 879090005307 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 879090005308 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 879090005309 Walker A/P-loop; other site 879090005310 ATP binding site [chemical binding]; other site 879090005311 Q-loop/lid; other site 879090005312 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 879090005313 ABC transporter signature motif; other site 879090005314 Walker B; other site 879090005315 D-loop; other site 879090005316 H-loop/switch region; other site 879090005317 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 879090005318 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 879090005319 active site 879090005320 metal binding site [ion binding]; metal-binding site 879090005321 DNA binding site [nucleotide binding] 879090005322 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 879090005323 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 879090005324 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 879090005325 putative acyl-acceptor binding pocket; other site 879090005326 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 879090005327 Membrane protein involved in cytochrome C biogenesis [Posttranslational modification, protein turnover, chaperones]; Region: CcdC; COG4846 879090005328 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090005329 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090005330 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 879090005331 Walker A/P-loop; other site 879090005332 ATP binding site [chemical binding]; other site 879090005333 Q-loop/lid; other site 879090005334 ABC transporter signature motif; other site 879090005335 Walker B; other site 879090005336 D-loop; other site 879090005337 H-loop/switch region; other site 879090005338 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090005339 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 879090005340 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090005341 Walker A/P-loop; other site 879090005342 ATP binding site [chemical binding]; other site 879090005343 Q-loop/lid; other site 879090005344 ABC transporter signature motif; other site 879090005345 Walker B; other site 879090005346 D-loop; other site 879090005347 H-loop/switch region; other site 879090005348 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 879090005349 active site 879090005350 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 879090005351 elongation factor Ts; Provisional; Region: tsf; PRK09377 879090005352 UBA/TS-N domain; Region: UBA; pfam00627 879090005353 Elongation factor TS; Region: EF_TS; pfam00889 879090005354 Elongation factor TS; Region: EF_TS; pfam00889 879090005355 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 879090005356 rRNA interaction site [nucleotide binding]; other site 879090005357 S8 interaction site; other site 879090005358 putative laminin-1 binding site; other site 879090005359 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 879090005360 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 879090005361 HIGH motif; other site 879090005362 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 879090005363 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 879090005364 active site 879090005365 KMSKS motif; other site 879090005366 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 879090005367 tRNA binding surface [nucleotide binding]; other site 879090005368 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 879090005369 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 879090005370 FeS/SAM binding site; other site 879090005371 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 879090005372 S-adenosylmethionine binding site [chemical binding]; other site 879090005373 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 879090005374 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 879090005375 active site 879090005376 dimer interface [polypeptide binding]; other site 879090005377 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 879090005378 Ligand Binding Site [chemical binding]; other site 879090005379 Molecular Tunnel; other site 879090005380 S-adenosylmethionine synthetase; Validated; Region: PRK05250 879090005381 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 879090005382 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 879090005383 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 879090005384 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 879090005385 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 879090005386 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 879090005387 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090005388 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 879090005389 NAD binding site [chemical binding]; other site 879090005390 dimer interface [polypeptide binding]; other site 879090005391 substrate binding site [chemical binding]; other site 879090005392 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 879090005393 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 879090005394 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 879090005395 nudix motif; other site 879090005396 Uncharacterized conserved protein [Function unknown]; Region: COG0759 879090005397 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 879090005398 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 879090005399 metal binding site [ion binding]; metal-binding site 879090005400 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 879090005401 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 879090005402 acyl-activating enzyme (AAE) consensus motif; other site 879090005403 putative AMP binding site [chemical binding]; other site 879090005404 putative active site [active] 879090005405 putative CoA binding site [chemical binding]; other site 879090005406 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 879090005407 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 879090005408 substrate binding site [chemical binding]; other site 879090005409 oxyanion hole (OAH) forming residues; other site 879090005410 trimer interface [polypeptide binding]; other site 879090005411 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 879090005412 Serine hydrolase (FSH1); Region: FSH1; pfam03959 879090005413 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 879090005414 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 879090005415 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 879090005416 dimer interface [polypeptide binding]; other site 879090005417 tetramer interface [polypeptide binding]; other site 879090005418 PYR/PP interface [polypeptide binding]; other site 879090005419 TPP binding site [chemical binding]; other site 879090005420 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 879090005421 TPP-binding site; other site 879090005422 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 879090005423 chorismate binding enzyme; Region: Chorismate_bind; cl10555 879090005424 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 879090005425 UbiA prenyltransferase family; Region: UbiA; pfam01040 879090005426 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 879090005427 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 879090005428 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 879090005429 FAD binding site [chemical binding]; other site 879090005430 cystathionine beta-lyase; Provisional; Region: PRK08064 879090005431 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 879090005432 homodimer interface [polypeptide binding]; other site 879090005433 substrate-cofactor binding pocket; other site 879090005434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090005435 catalytic residue [active] 879090005436 cystathionine gamma-synthase; Reviewed; Region: PRK08247 879090005437 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 879090005438 homodimer interface [polypeptide binding]; other site 879090005439 substrate-cofactor binding pocket; other site 879090005440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090005441 catalytic residue [active] 879090005442 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 879090005443 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 879090005444 THF binding site; other site 879090005445 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 879090005446 substrate binding site [chemical binding]; other site 879090005447 THF binding site; other site 879090005448 zinc-binding site [ion binding]; other site 879090005449 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 879090005450 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090005451 putative substrate translocation pore; other site 879090005452 ferric uptake regulator; Provisional; Region: fur; PRK09462 879090005453 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 879090005454 metal binding site 2 [ion binding]; metal-binding site 879090005455 putative DNA binding helix; other site 879090005456 metal binding site 1 [ion binding]; metal-binding site 879090005457 dimer interface [polypeptide binding]; other site 879090005458 structural Zn2+ binding site [ion binding]; other site 879090005459 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 879090005460 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 879090005461 NAD binding site [chemical binding]; other site 879090005462 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 879090005463 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 879090005464 inhibitor-cofactor binding pocket; inhibition site 879090005465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090005466 catalytic residue [active] 879090005467 Predicted membrane protein [Function unknown]; Region: COG4129 879090005468 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 879090005469 Predicted membrane protein [Function unknown]; Region: COG4129 879090005470 hypothetical protein; Provisional; Region: PRK13662 879090005471 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 879090005472 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 879090005473 putative NAD(P) binding site [chemical binding]; other site 879090005474 active site 879090005475 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 879090005476 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 879090005477 minor groove reading motif; other site 879090005478 helix-hairpin-helix signature motif; other site 879090005479 substrate binding pocket [chemical binding]; other site 879090005480 active site 879090005481 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 879090005482 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 879090005483 DNA binding and oxoG recognition site [nucleotide binding] 879090005484 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 879090005485 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 879090005486 trimer interface [polypeptide binding]; other site 879090005487 active site 879090005488 WVELL protein; Region: WVELL; pfam14043 879090005489 recombination regulator RecX; Provisional; Region: recX; PRK14135 879090005490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879090005491 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 879090005492 NAD(P) binding site [chemical binding]; other site 879090005493 active site 879090005494 Predicted integral membrane protein [Function unknown]; Region: COG0392 879090005495 Uncharacterized conserved protein [Function unknown]; Region: COG2898 879090005496 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 879090005497 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 879090005498 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 879090005499 Cation efflux family; Region: Cation_efflux; pfam01545 879090005500 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 879090005501 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 879090005502 PAS fold; Region: PAS_4; pfam08448 879090005503 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 879090005504 putative active site [active] 879090005505 heme pocket [chemical binding]; other site 879090005506 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 879090005507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 879090005508 dimer interface [polypeptide binding]; other site 879090005509 putative CheW interface [polypeptide binding]; other site 879090005510 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 879090005511 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 879090005512 dimer interface [polypeptide binding]; other site 879090005513 active site 879090005514 Mn binding site [ion binding]; other site 879090005515 TRAM domain; Region: TRAM; cl01282 879090005516 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 879090005517 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 879090005518 S-adenosylmethionine binding site [chemical binding]; other site 879090005519 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 879090005520 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 879090005521 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 879090005522 Substrate-binding site [chemical binding]; other site 879090005523 Substrate specificity [chemical binding]; other site 879090005524 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 879090005525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4840 879090005526 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 879090005527 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 879090005528 active site 879090005529 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 879090005530 flavodoxin, short chain; Region: flav_short; TIGR01753 879090005531 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 879090005532 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 879090005533 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 879090005534 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090005535 putative substrate translocation pore; other site 879090005536 rod-share determining protein MreBH; Provisional; Region: PRK13929 879090005537 MreB and similar proteins; Region: MreB_like; cd10225 879090005538 nucleotide binding site [chemical binding]; other site 879090005539 Mg binding site [ion binding]; other site 879090005540 putative protofilament interaction site [polypeptide binding]; other site 879090005541 RodZ interaction site [polypeptide binding]; other site 879090005542 Methyltransferase domain; Region: Methyltransf_31; pfam13847 879090005543 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 879090005544 S-adenosylmethionine binding site [chemical binding]; other site 879090005545 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090005546 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090005547 Uncharacterized conserved protein [Function unknown]; Region: COG3589 879090005548 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 879090005549 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 879090005550 methionine cluster; other site 879090005551 active site 879090005552 phosphorylation site [posttranslational modification] 879090005553 metal binding site [ion binding]; metal-binding site 879090005554 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 879090005555 active site 879090005556 P-loop; other site 879090005557 phosphorylation site [posttranslational modification] 879090005558 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 879090005559 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 879090005560 Walker A motif; other site 879090005561 ATP binding site [chemical binding]; other site 879090005562 Walker B motif; other site 879090005563 arginine finger; other site 879090005564 Transcriptional antiterminator [Transcription]; Region: COG3933 879090005565 PRD domain; Region: PRD; pfam00874 879090005566 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 879090005567 active pocket/dimerization site; other site 879090005568 active site 879090005569 phosphorylation site [posttranslational modification] 879090005570 PRD domain; Region: PRD; pfam00874 879090005571 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 879090005572 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 879090005573 ATP binding site [chemical binding]; other site 879090005574 putative Mg++ binding site [ion binding]; other site 879090005575 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 879090005576 nucleotide binding region [chemical binding]; other site 879090005577 ATP-binding site [chemical binding]; other site 879090005578 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 879090005579 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879090005580 Walker A/P-loop; other site 879090005581 ATP binding site [chemical binding]; other site 879090005582 Q-loop/lid; other site 879090005583 ABC transporter signature motif; other site 879090005584 Walker B; other site 879090005585 D-loop; other site 879090005586 H-loop/switch region; other site 879090005587 Predicted transcriptional regulators [Transcription]; Region: COG1725 879090005588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090005589 DNA-binding site [nucleotide binding]; DNA binding site 879090005590 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879090005591 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090005592 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090005593 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090005594 DNA binding site [nucleotide binding] 879090005595 domain linker motif; other site 879090005596 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 879090005597 dimerization interface [polypeptide binding]; other site 879090005598 ligand binding site [chemical binding]; other site 879090005599 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 879090005600 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 879090005601 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 879090005602 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 879090005603 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 879090005604 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 879090005605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090005606 dimer interface [polypeptide binding]; other site 879090005607 conserved gate region; other site 879090005608 putative PBP binding loops; other site 879090005609 ABC-ATPase subunit interface; other site 879090005610 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 879090005611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090005612 dimer interface [polypeptide binding]; other site 879090005613 conserved gate region; other site 879090005614 putative PBP binding loops; other site 879090005615 ABC-ATPase subunit interface; other site 879090005616 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 879090005617 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 879090005618 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 879090005619 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 879090005620 active site 879090005621 dimer interface [polypeptide binding]; other site 879090005622 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 879090005623 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 879090005624 active site 879090005625 FMN binding site [chemical binding]; other site 879090005626 substrate binding site [chemical binding]; other site 879090005627 3Fe-4S cluster binding site [ion binding]; other site 879090005628 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 879090005629 domain interface; other site 879090005630 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090005631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090005632 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 879090005633 putative dimerization interface [polypeptide binding]; other site 879090005634 Predicted acetyltransferase [General function prediction only]; Region: COG3153 879090005635 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 879090005636 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 879090005637 putative active site [active] 879090005638 metal binding site [ion binding]; metal-binding site 879090005639 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 879090005640 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 879090005641 substrate binding pocket [chemical binding]; other site 879090005642 membrane-bound complex binding site; other site 879090005643 hinge residues; other site 879090005644 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090005645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090005646 Walker A/P-loop; other site 879090005647 ATP binding site [chemical binding]; other site 879090005648 Q-loop/lid; other site 879090005649 ABC transporter signature motif; other site 879090005650 Walker B; other site 879090005651 D-loop; other site 879090005652 H-loop/switch region; other site 879090005653 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090005654 dimer interface [polypeptide binding]; other site 879090005655 conserved gate region; other site 879090005656 putative PBP binding loops; other site 879090005657 ABC-ATPase subunit interface; other site 879090005658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 879090005659 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 879090005660 dimer interface [polypeptide binding]; other site 879090005661 phosphorylation site [posttranslational modification] 879090005662 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 879090005663 ATP binding site [chemical binding]; other site 879090005664 Mg2+ binding site [ion binding]; other site 879090005665 G-X-G motif; other site 879090005666 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 879090005667 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 879090005668 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 879090005669 active site 879090005670 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 879090005671 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 879090005672 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 879090005673 putative NAD(P) binding site [chemical binding]; other site 879090005674 active site 879090005675 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090005676 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 879090005677 active site 879090005678 phosphorylation site [posttranslational modification] 879090005679 intermolecular recognition site; other site 879090005680 dimerization interface [polypeptide binding]; other site 879090005681 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 879090005682 DNA binding site [nucleotide binding] 879090005683 FtsX-like permease family; Region: FtsX; pfam02687 879090005684 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 879090005685 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090005686 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090005687 Walker A/P-loop; other site 879090005688 ATP binding site [chemical binding]; other site 879090005689 Q-loop/lid; other site 879090005690 ABC transporter signature motif; other site 879090005691 Walker B; other site 879090005692 D-loop; other site 879090005693 H-loop/switch region; other site 879090005694 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 879090005695 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 879090005696 ADP binding site [chemical binding]; other site 879090005697 magnesium binding site [ion binding]; other site 879090005698 putative shikimate binding site; other site 879090005699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 879090005700 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 879090005701 TRAM domain; Region: TRAM; pfam01938 879090005702 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 879090005703 S-adenosylmethionine binding site [chemical binding]; other site 879090005704 putative lipid kinase; Reviewed; Region: PRK13337 879090005705 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 879090005706 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 879090005707 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 879090005708 GatB domain; Region: GatB_Yqey; pfam02637 879090005709 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 879090005710 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 879090005711 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 879090005712 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 879090005713 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 879090005714 putative dimer interface [polypeptide binding]; other site 879090005715 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 879090005716 putative dimer interface [polypeptide binding]; other site 879090005717 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 879090005718 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 879090005719 nucleotide binding pocket [chemical binding]; other site 879090005720 K-X-D-G motif; other site 879090005721 catalytic site [active] 879090005722 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 879090005723 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 879090005724 Dimer interface [polypeptide binding]; other site 879090005725 BRCT sequence motif; other site 879090005726 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 879090005727 Part of AAA domain; Region: AAA_19; pfam13245 879090005728 Family description; Region: UvrD_C_2; pfam13538 879090005729 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 879090005730 PcrB family; Region: PcrB; pfam01884 879090005731 substrate binding site [chemical binding]; other site 879090005732 putative active site [active] 879090005733 dimer interface [polypeptide binding]; other site 879090005734 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 879090005735 Na2 binding site [ion binding]; other site 879090005736 putative substrate binding site 1 [chemical binding]; other site 879090005737 Na binding site 1 [ion binding]; other site 879090005738 putative substrate binding site 2 [chemical binding]; other site 879090005739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 879090005740 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 879090005741 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 879090005742 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 879090005743 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 879090005744 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 879090005745 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 879090005746 purine monophosphate binding site [chemical binding]; other site 879090005747 dimer interface [polypeptide binding]; other site 879090005748 putative catalytic residues [active] 879090005749 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 879090005750 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 879090005751 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 879090005752 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 879090005753 active site 879090005754 substrate binding site [chemical binding]; other site 879090005755 cosubstrate binding site; other site 879090005756 catalytic site [active] 879090005757 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 879090005758 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 879090005759 dimerization interface [polypeptide binding]; other site 879090005760 putative ATP binding site [chemical binding]; other site 879090005761 amidophosphoribosyltransferase; Provisional; Region: PRK06781 879090005762 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 879090005763 active site 879090005764 tetramer interface [polypeptide binding]; other site 879090005765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090005766 active site 879090005767 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 879090005768 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 879090005769 dimerization interface [polypeptide binding]; other site 879090005770 ATP binding site [chemical binding]; other site 879090005771 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 879090005772 dimerization interface [polypeptide binding]; other site 879090005773 ATP binding site [chemical binding]; other site 879090005774 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 879090005775 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 879090005776 putative active site [active] 879090005777 catalytic triad [active] 879090005778 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 879090005779 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 879090005780 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 879090005781 ATP binding site [chemical binding]; other site 879090005782 active site 879090005783 substrate binding site [chemical binding]; other site 879090005784 adenylosuccinate lyase; Provisional; Region: PRK07492 879090005785 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 879090005786 tetramer interface [polypeptide binding]; other site 879090005787 active site 879090005788 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 879090005789 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 879090005790 NAD binding site [chemical binding]; other site 879090005791 ATP-grasp domain; Region: ATP-grasp; pfam02222 879090005792 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 879090005793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 879090005794 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879090005795 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 879090005796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090005797 Zn2+ binding site [ion binding]; other site 879090005798 Mg2+ binding site [ion binding]; other site 879090005799 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 879090005800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090005801 Walker A/P-loop; other site 879090005802 ATP binding site [chemical binding]; other site 879090005803 Q-loop/lid; other site 879090005804 ABC transporter signature motif; other site 879090005805 Walker B; other site 879090005806 D-loop; other site 879090005807 H-loop/switch region; other site 879090005808 peptidase T; Region: peptidase-T; TIGR01882 879090005809 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 879090005810 metal binding site [ion binding]; metal-binding site 879090005811 dimer interface [polypeptide binding]; other site 879090005812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 879090005813 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 879090005814 active site 879090005815 putative catalytic site [active] 879090005816 DNA binding site [nucleotide binding] 879090005817 putative phosphate binding site [ion binding]; other site 879090005818 metal binding site A [ion binding]; metal-binding site 879090005819 AP binding site [nucleotide binding]; other site 879090005820 metal binding site B [ion binding]; metal-binding site 879090005821 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 879090005822 23S rRNA binding site [nucleotide binding]; other site 879090005823 L21 binding site [polypeptide binding]; other site 879090005824 L13 binding site [polypeptide binding]; other site 879090005825 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 879090005826 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 879090005827 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 879090005828 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 879090005829 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090005830 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090005831 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 879090005832 Substrate binding site [chemical binding]; other site 879090005833 Leucine rich repeat; Region: LRR_8; pfam13855 879090005834 LRR adjacent; Region: LRR_adjacent; pfam08191 879090005835 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 879090005836 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 879090005837 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 879090005838 DNA binding residues [nucleotide binding] 879090005839 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 879090005840 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 879090005841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 879090005842 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 879090005843 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 879090005844 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 879090005845 RimM N-terminal domain; Region: RimM; pfam01782 879090005846 PRC-barrel domain; Region: PRC; pfam05239 879090005847 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 879090005848 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 879090005849 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 879090005850 catalytic triad [active] 879090005851 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 879090005852 KH domain; Region: KH_4; pfam13083 879090005853 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 879090005854 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 879090005855 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 879090005856 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 879090005857 signal recognition particle protein; Provisional; Region: PRK10867 879090005858 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 879090005859 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 879090005860 P loop; other site 879090005861 GTP binding site [chemical binding]; other site 879090005862 Signal peptide binding domain; Region: SRP_SPB; pfam02978 879090005863 putative DNA-binding protein; Validated; Region: PRK00118 879090005864 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 879090005865 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 879090005866 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 879090005867 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 879090005868 P loop; other site 879090005869 GTP binding site [chemical binding]; other site 879090005870 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 879090005871 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 879090005872 Walker A/P-loop; other site 879090005873 ATP binding site [chemical binding]; other site 879090005874 Q-loop/lid; other site 879090005875 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 879090005876 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 879090005877 ABC transporter signature motif; other site 879090005878 Walker B; other site 879090005879 D-loop; other site 879090005880 H-loop/switch region; other site 879090005881 ribonuclease III; Reviewed; Region: rnc; PRK00102 879090005882 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 879090005883 dimerization interface [polypeptide binding]; other site 879090005884 active site 879090005885 metal binding site [ion binding]; metal-binding site 879090005886 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 879090005887 dsRNA binding site [nucleotide binding]; other site 879090005888 acyl carrier protein; Provisional; Region: acpP; PRK00982 879090005889 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 879090005890 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 879090005891 NAD(P) binding site [chemical binding]; other site 879090005892 homotetramer interface [polypeptide binding]; other site 879090005893 homodimer interface [polypeptide binding]; other site 879090005894 active site 879090005895 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 879090005896 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 879090005897 putative phosphate acyltransferase; Provisional; Region: PRK05331 879090005898 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 879090005899 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 879090005900 active site 2 [active] 879090005901 active site 1 [active] 879090005902 Y-family of DNA polymerases; Region: PolY; cl12025 879090005903 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 879090005904 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 879090005905 generic binding surface II; other site 879090005906 ssDNA binding site; other site 879090005907 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 879090005908 ATP binding site [chemical binding]; other site 879090005909 putative Mg++ binding site [ion binding]; other site 879090005910 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 879090005911 nucleotide binding region [chemical binding]; other site 879090005912 ATP-binding site [chemical binding]; other site 879090005913 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 879090005914 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 879090005915 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 879090005916 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 879090005917 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 879090005918 putative L-serine binding site [chemical binding]; other site 879090005919 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 879090005920 DAK2 domain; Region: Dak2; pfam02734 879090005921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 879090005922 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 879090005923 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 879090005924 Thiamine pyrophosphokinase; Region: TPK; cd07995 879090005925 active site 879090005926 dimerization interface [polypeptide binding]; other site 879090005927 thiamine binding site [chemical binding]; other site 879090005928 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 879090005929 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 879090005930 substrate binding site [chemical binding]; other site 879090005931 hexamer interface [polypeptide binding]; other site 879090005932 metal binding site [ion binding]; metal-binding site 879090005933 GTPase RsgA; Reviewed; Region: PRK00098 879090005934 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 879090005935 RNA binding site [nucleotide binding]; other site 879090005936 homodimer interface [polypeptide binding]; other site 879090005937 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 879090005938 GTPase/Zn-binding domain interface [polypeptide binding]; other site 879090005939 GTP/Mg2+ binding site [chemical binding]; other site 879090005940 G4 box; other site 879090005941 G1 box; other site 879090005942 Switch I region; other site 879090005943 G2 box; other site 879090005944 G3 box; other site 879090005945 Switch II region; other site 879090005946 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 879090005947 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 879090005948 active site 879090005949 ATP binding site [chemical binding]; other site 879090005950 substrate binding site [chemical binding]; other site 879090005951 activation loop (A-loop); other site 879090005952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 879090005953 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 879090005954 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 879090005955 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 879090005956 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 879090005957 Protein phosphatase 2C; Region: PP2C; pfam00481 879090005958 active site 879090005959 16S rRNA methyltransferase B; Provisional; Region: PRK14902 879090005960 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 879090005961 putative RNA binding site [nucleotide binding]; other site 879090005962 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 879090005963 S-adenosylmethionine binding site [chemical binding]; other site 879090005964 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 879090005965 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 879090005966 putative active site [active] 879090005967 substrate binding site [chemical binding]; other site 879090005968 putative cosubstrate binding site; other site 879090005969 catalytic site [active] 879090005970 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 879090005971 substrate binding site [chemical binding]; other site 879090005972 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 879090005973 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 879090005974 ATP binding site [chemical binding]; other site 879090005975 putative Mg++ binding site [ion binding]; other site 879090005976 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 879090005977 ATP-binding site [chemical binding]; other site 879090005978 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 879090005979 Flavoprotein; Region: Flavoprotein; pfam02441 879090005980 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 879090005981 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 879090005982 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 879090005983 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 879090005984 catalytic site [active] 879090005985 G-X2-G-X-G-K; other site 879090005986 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 879090005987 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 879090005988 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 879090005989 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 879090005990 Domain of unknown function (DUF814); Region: DUF814; pfam05670 879090005991 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 879090005992 putative NAD(P) binding site [chemical binding]; other site 879090005993 homodimer interface [polypeptide binding]; other site 879090005994 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090005995 active site 879090005996 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 879090005997 active site 879090005998 dimer interface [polypeptide binding]; other site 879090005999 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 879090006000 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 879090006001 heterodimer interface [polypeptide binding]; other site 879090006002 active site 879090006003 FMN binding site [chemical binding]; other site 879090006004 homodimer interface [polypeptide binding]; other site 879090006005 substrate binding site [chemical binding]; other site 879090006006 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 879090006007 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 879090006008 FAD binding pocket [chemical binding]; other site 879090006009 FAD binding motif [chemical binding]; other site 879090006010 phosphate binding motif [ion binding]; other site 879090006011 beta-alpha-beta structure motif; other site 879090006012 NAD binding pocket [chemical binding]; other site 879090006013 Iron coordination center [ion binding]; other site 879090006014 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 879090006015 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 879090006016 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 879090006017 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 879090006018 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 879090006019 ATP-grasp domain; Region: ATP-grasp_4; cl17255 879090006020 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 879090006021 IMP binding site; other site 879090006022 dimer interface [polypeptide binding]; other site 879090006023 interdomain contacts; other site 879090006024 partial ornithine binding site; other site 879090006025 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 879090006026 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 879090006027 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 879090006028 catalytic site [active] 879090006029 subunit interface [polypeptide binding]; other site 879090006030 dihydroorotase; Validated; Region: pyrC; PRK09357 879090006031 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 879090006032 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 879090006033 active site 879090006034 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 879090006035 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 879090006036 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 879090006037 uracil transporter; Provisional; Region: PRK10720 879090006038 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 879090006039 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090006040 active site 879090006041 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 879090006042 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 879090006043 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 879090006044 RNA binding surface [nucleotide binding]; other site 879090006045 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 879090006046 active site 879090006047 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 879090006048 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 879090006049 Sulfate transporter family; Region: Sulfate_transp; pfam00916 879090006050 multidrug efflux protein; Reviewed; Region: PRK01766 879090006051 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 879090006052 cation binding site [ion binding]; other site 879090006053 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 879090006054 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 879090006055 metal binding site [ion binding]; metal-binding site 879090006056 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 879090006057 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 879090006058 ABC-ATPase subunit interface; other site 879090006059 dimer interface [polypeptide binding]; other site 879090006060 putative PBP binding regions; other site 879090006061 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 879090006062 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 879090006063 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879090006064 MarR family; Region: MarR; pfam01047 879090006065 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 879090006066 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 879090006067 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 879090006068 protein binding site [polypeptide binding]; other site 879090006069 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 879090006070 Catalytic dyad [active] 879090006071 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 879090006072 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 879090006073 metal-binding site [ion binding] 879090006074 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 879090006075 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 879090006076 metal-binding site [ion binding] 879090006077 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879090006078 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 879090006079 motif II; other site 879090006080 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 879090006081 putative homodimer interface [polypeptide binding]; other site 879090006082 putative homotetramer interface [polypeptide binding]; other site 879090006083 putative allosteric switch controlling residues; other site 879090006084 putative metal binding site [ion binding]; other site 879090006085 putative homodimer-homodimer interface [polypeptide binding]; other site 879090006086 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 879090006087 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 879090006088 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 879090006089 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 879090006090 hypothetical protein; Provisional; Region: PRK13672 879090006091 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879090006092 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090006093 methionine sulfoxide reductase B; Provisional; Region: PRK00222 879090006094 SelR domain; Region: SelR; pfam01641 879090006095 methionine sulfoxide reductase A; Provisional; Region: PRK14054 879090006096 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 879090006097 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 879090006098 active site 879090006099 catalytic triad [active] 879090006100 oxyanion hole [active] 879090006101 EDD domain protein, DegV family; Region: DegV; TIGR00762 879090006102 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 879090006103 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 879090006104 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 879090006105 HTH domain; Region: HTH_11; pfam08279 879090006106 FOG: CBS domain [General function prediction only]; Region: COG0517 879090006107 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 879090006108 PEP synthetase regulatory protein; Provisional; Region: PRK05339 879090006109 pyruvate phosphate dikinase; Provisional; Region: PRK09279 879090006110 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 879090006111 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 879090006112 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 879090006113 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090006114 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 879090006115 Predicted membrane protein [Function unknown]; Region: COG4129 879090006116 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 879090006117 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 879090006118 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 879090006119 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 879090006120 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 879090006121 active site 879090006122 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 879090006123 substrate binding site [chemical binding]; other site 879090006124 metal binding site [ion binding]; metal-binding site 879090006125 Methyltransferase domain; Region: Methyltransf_23; pfam13489 879090006126 Methyltransferase domain; Region: Methyltransf_18; pfam12847 879090006127 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 879090006128 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 879090006129 folate binding site [chemical binding]; other site 879090006130 NADP+ binding site [chemical binding]; other site 879090006131 thymidylate synthase; Region: thym_sym; TIGR03284 879090006132 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 879090006133 dimerization interface [polypeptide binding]; other site 879090006134 active site 879090006135 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 879090006136 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 879090006137 Walker A/P-loop; other site 879090006138 ATP binding site [chemical binding]; other site 879090006139 Q-loop/lid; other site 879090006140 ABC transporter signature motif; other site 879090006141 Walker B; other site 879090006142 D-loop; other site 879090006143 H-loop/switch region; other site 879090006144 ABC transporter; Region: ABC_tran_2; pfam12848 879090006145 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090006146 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 879090006147 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 879090006148 Potassium binding sites [ion binding]; other site 879090006149 Cesium cation binding sites [ion binding]; other site 879090006150 manganese transport transcriptional regulator; Provisional; Region: PRK03902 879090006151 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 879090006152 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 879090006153 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 879090006154 DNA-binding site [nucleotide binding]; DNA binding site 879090006155 RNA-binding motif; other site 879090006156 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 879090006157 RNA/DNA hybrid binding site [nucleotide binding]; other site 879090006158 active site 879090006159 5'-3' exonuclease; Region: 53EXOc; smart00475 879090006160 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 879090006161 active site 879090006162 metal binding site 1 [ion binding]; metal-binding site 879090006163 putative 5' ssDNA interaction site; other site 879090006164 metal binding site 3; metal-binding site 879090006165 metal binding site 2 [ion binding]; metal-binding site 879090006166 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 879090006167 putative DNA binding site [nucleotide binding]; other site 879090006168 putative metal binding site [ion binding]; other site 879090006169 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 879090006170 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 879090006171 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 879090006172 putative active site [active] 879090006173 xanthine permease; Region: pbuX; TIGR03173 879090006174 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090006175 active site 879090006176 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 879090006177 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 879090006178 active site 879090006179 Zn binding site [ion binding]; other site 879090006180 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 879090006181 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 879090006182 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 879090006183 cell division protein GpsB; Provisional; Region: PRK14127 879090006184 DivIVA domain; Region: DivI1A_domain; TIGR03544 879090006185 Interactor of ZYG-11; Region: ZYG-11_interact; pfam05884 879090006186 hypothetical protein; Provisional; Region: PRK13660 879090006187 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 879090006188 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 879090006189 Transglycosylase; Region: Transgly; pfam00912 879090006190 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 879090006191 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 879090006192 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 879090006193 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 879090006194 minor groove reading motif; other site 879090006195 helix-hairpin-helix signature motif; other site 879090006196 substrate binding pocket [chemical binding]; other site 879090006197 active site 879090006198 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 879090006199 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 879090006200 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 879090006201 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 879090006202 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 879090006203 putative dimer interface [polypeptide binding]; other site 879090006204 putative anticodon binding site; other site 879090006205 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 879090006206 homodimer interface [polypeptide binding]; other site 879090006207 motif 1; other site 879090006208 motif 2; other site 879090006209 active site 879090006210 motif 3; other site 879090006211 aspartate aminotransferase; Provisional; Region: PRK05764 879090006212 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 879090006213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090006214 homodimer interface [polypeptide binding]; other site 879090006215 catalytic residue [active] 879090006216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 879090006217 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 879090006218 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 879090006219 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 879090006220 active site 879090006221 catalytic site [active] 879090006222 substrate binding site [chemical binding]; other site 879090006223 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 879090006224 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 879090006225 putative Mg++ binding site [ion binding]; other site 879090006226 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 879090006227 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 879090006228 tetramerization interface [polypeptide binding]; other site 879090006229 active site 879090006230 pantoate--beta-alanine ligase; Region: panC; TIGR00018 879090006231 Pantoate-beta-alanine ligase; Region: PanC; cd00560 879090006232 active site 879090006233 ATP-binding site [chemical binding]; other site 879090006234 pantoate-binding site; other site 879090006235 HXXH motif; other site 879090006236 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 879090006237 active site 879090006238 oligomerization interface [polypeptide binding]; other site 879090006239 metal binding site [ion binding]; metal-binding site 879090006240 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 879090006241 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879090006242 catalytic residues [active] 879090006243 Biotin operon repressor [Transcription]; Region: BirA; COG1654 879090006244 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 879090006245 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 879090006246 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 879090006247 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 879090006248 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 879090006249 active site 879090006250 NTP binding site [chemical binding]; other site 879090006251 metal binding triad [ion binding]; metal-binding site 879090006252 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 879090006253 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 879090006254 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 879090006255 active site 879090006256 dimer interfaces [polypeptide binding]; other site 879090006257 catalytic residues [active] 879090006258 dihydrodipicolinate reductase; Provisional; Region: PRK00048 879090006259 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 879090006260 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 879090006261 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 879090006262 homodimer interface [polypeptide binding]; other site 879090006263 metal binding site [ion binding]; metal-binding site 879090006264 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879090006265 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879090006266 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879090006267 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879090006268 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 879090006269 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 879090006270 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 879090006271 metal binding site [ion binding]; metal-binding site 879090006272 active site 879090006273 I-site; other site 879090006274 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 879090006275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 879090006276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 879090006277 metal binding site [ion binding]; metal-binding site 879090006278 active site 879090006279 I-site; other site 879090006280 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 879090006281 malate dehydrogenase; Provisional; Region: PRK13529 879090006282 Malic enzyme, N-terminal domain; Region: malic; pfam00390 879090006283 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 879090006284 NAD(P) binding pocket [chemical binding]; other site 879090006285 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 879090006286 Beta-lactamase; Region: Beta-lactamase; pfam00144 879090006287 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 879090006288 Pyruvate formate lyase 1; Region: PFL1; cd01678 879090006289 coenzyme A binding site [chemical binding]; other site 879090006290 active site 879090006291 catalytic residues [active] 879090006292 glycine loop; other site 879090006293 HI0933-like protein; Region: HI0933_like; pfam03486 879090006294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879090006295 Predicted Zn-dependent protease [General function prediction only]; Region: COG2738 879090006296 Predicted membrane protein [Function unknown]; Region: COG4347 879090006297 hypothetical protein; Provisional; Region: PRK03636 879090006298 UPF0302 domain; Region: UPF0302; pfam08864 879090006299 IDEAL domain; Region: IDEAL; pfam08858 879090006300 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 879090006301 binding surface 879090006302 TPR motif; other site 879090006303 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 879090006304 binding surface 879090006305 Tetratricopeptide repeat; Region: TPR_16; pfam13432 879090006306 TPR motif; other site 879090006307 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 879090006308 binding surface 879090006309 TPR motif; other site 879090006310 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 879090006311 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 879090006312 hinge; other site 879090006313 active site 879090006314 prephenate dehydrogenase; Validated; Region: PRK06545 879090006315 prephenate dehydrogenase; Validated; Region: PRK08507 879090006316 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 879090006317 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 879090006318 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 879090006319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090006320 homodimer interface [polypeptide binding]; other site 879090006321 catalytic residue [active] 879090006322 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 879090006323 homotrimer interaction site [polypeptide binding]; other site 879090006324 active site 879090006325 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 879090006326 active site 879090006327 dimer interface [polypeptide binding]; other site 879090006328 metal binding site [ion binding]; metal-binding site 879090006329 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 879090006330 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 879090006331 Tetramer interface [polypeptide binding]; other site 879090006332 active site 879090006333 FMN-binding site [chemical binding]; other site 879090006334 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 879090006335 active site 879090006336 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 879090006337 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 879090006338 substrate binding pocket [chemical binding]; other site 879090006339 chain length determination region; other site 879090006340 substrate-Mg2+ binding site; other site 879090006341 catalytic residues [active] 879090006342 aspartate-rich region 1; other site 879090006343 active site lid residues [active] 879090006344 aspartate-rich region 2; other site 879090006345 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 879090006346 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 879090006347 S-adenosylmethionine binding site [chemical binding]; other site 879090006348 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 879090006349 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 879090006350 homodecamer interface [polypeptide binding]; other site 879090006351 GTP cyclohydrolase I; Provisional; Region: PLN03044 879090006352 active site 879090006353 putative catalytic site residues [active] 879090006354 zinc binding site [ion binding]; other site 879090006355 GTP-CH-I/GFRP interaction surface; other site 879090006356 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 879090006357 IHF dimer interface [polypeptide binding]; other site 879090006358 IHF - DNA interface [nucleotide binding]; other site 879090006359 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 879090006360 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 879090006361 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 879090006362 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 879090006363 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 879090006364 GTP-binding protein Der; Reviewed; Region: PRK00093 879090006365 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 879090006366 G1 box; other site 879090006367 GTP/Mg2+ binding site [chemical binding]; other site 879090006368 Switch I region; other site 879090006369 G2 box; other site 879090006370 Switch II region; other site 879090006371 G3 box; other site 879090006372 G4 box; other site 879090006373 G5 box; other site 879090006374 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 879090006375 G1 box; other site 879090006376 GTP/Mg2+ binding site [chemical binding]; other site 879090006377 Switch I region; other site 879090006378 G2 box; other site 879090006379 G3 box; other site 879090006380 Switch II region; other site 879090006381 G4 box; other site 879090006382 G5 box; other site 879090006383 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 879090006384 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 879090006385 RNA binding site [nucleotide binding]; other site 879090006386 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 879090006387 RNA binding site [nucleotide binding]; other site 879090006388 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 879090006389 RNA binding site [nucleotide binding]; other site 879090006390 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 879090006391 RNA binding site [nucleotide binding]; other site 879090006392 cytidylate kinase; Provisional; Region: cmk; PRK00023 879090006393 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 879090006394 CMP-binding site; other site 879090006395 The sites determining sugar specificity; other site 879090006396 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 879090006397 active site 879090006398 homotetramer interface [polypeptide binding]; other site 879090006399 homodimer interface [polypeptide binding]; other site 879090006400 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090006401 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 879090006402 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 879090006403 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 879090006404 ATP binding site [chemical binding]; other site 879090006405 putative Mg++ binding site [ion binding]; other site 879090006406 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 879090006407 nucleotide binding region [chemical binding]; other site 879090006408 ATP-binding site [chemical binding]; other site 879090006409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 879090006410 Predicted membrane protein [Function unknown]; Region: COG3601 879090006411 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 879090006412 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 879090006413 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 879090006414 dimerization interface [polypeptide binding]; other site 879090006415 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 879090006416 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 879090006417 dimer interface [polypeptide binding]; other site 879090006418 phosphorylation site [posttranslational modification] 879090006419 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 879090006420 ATP binding site [chemical binding]; other site 879090006421 Mg2+ binding site [ion binding]; other site 879090006422 G-X-G motif; other site 879090006423 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090006424 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 879090006425 active site 879090006426 phosphorylation site [posttranslational modification] 879090006427 intermolecular recognition site; other site 879090006428 dimerization interface [polypeptide binding]; other site 879090006429 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 879090006430 DNA binding site [nucleotide binding] 879090006431 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 879090006432 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 879090006433 RNA binding surface [nucleotide binding]; other site 879090006434 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 879090006435 active site 879090006436 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 879090006437 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 879090006438 diaminopimelate decarboxylase; Region: lysA; TIGR01048 879090006439 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 879090006440 active site 879090006441 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 879090006442 substrate binding site [chemical binding]; other site 879090006443 catalytic residues [active] 879090006444 dimer interface [polypeptide binding]; other site 879090006445 purine nucleoside phosphorylase; Provisional; Region: PRK08202 879090006446 phosphopentomutase; Provisional; Region: PRK05362 879090006447 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 879090006448 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 879090006449 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 879090006450 active site 879090006451 Int/Topo IB signature motif; other site 879090006452 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 879090006453 metal binding site 2 [ion binding]; metal-binding site 879090006454 putative DNA binding helix; other site 879090006455 metal binding site 1 [ion binding]; metal-binding site 879090006456 dimer interface [polypeptide binding]; other site 879090006457 structural Zn2+ binding site [ion binding]; other site 879090006458 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 879090006459 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 879090006460 ABC-ATPase subunit interface; other site 879090006461 dimer interface [polypeptide binding]; other site 879090006462 putative PBP binding regions; other site 879090006463 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 879090006464 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 879090006465 ABC-ATPase subunit interface; other site 879090006466 dimer interface [polypeptide binding]; other site 879090006467 putative PBP binding regions; other site 879090006468 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 879090006469 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 879090006470 putative ligand binding residues [chemical binding]; other site 879090006471 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 879090006472 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 879090006473 Walker A/P-loop; other site 879090006474 ATP binding site [chemical binding]; other site 879090006475 Q-loop/lid; other site 879090006476 ABC transporter signature motif; other site 879090006477 Walker B; other site 879090006478 D-loop; other site 879090006479 H-loop/switch region; other site 879090006480 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 879090006481 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879090006482 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090006483 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090006484 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 879090006485 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 879090006486 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879090006487 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879090006488 Walker A/P-loop; other site 879090006489 ATP binding site [chemical binding]; other site 879090006490 Q-loop/lid; other site 879090006491 ABC transporter signature motif; other site 879090006492 Walker B; other site 879090006493 D-loop; other site 879090006494 H-loop/switch region; other site 879090006495 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 879090006496 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 879090006497 dimer interface [polypeptide binding]; other site 879090006498 ADP-ribose binding site [chemical binding]; other site 879090006499 active site 879090006500 nudix motif; other site 879090006501 metal binding site [ion binding]; metal-binding site 879090006502 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]; Region: XpaC; COG4915 879090006503 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 879090006504 Creatinine amidohydrolase; Region: Creatininase; pfam02633 879090006505 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 879090006506 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 879090006507 active site 879090006508 intersubunit interface [polypeptide binding]; other site 879090006509 catalytic residue [active] 879090006510 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 879090006511 active site 879090006512 substrate binding pocket [chemical binding]; other site 879090006513 homodimer interaction site [polypeptide binding]; other site 879090006514 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 879090006515 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 879090006516 active site 879090006517 P-loop; other site 879090006518 phosphorylation site [posttranslational modification] 879090006519 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 879090006520 active site 879090006521 phosphorylation site [posttranslational modification] 879090006522 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090006523 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090006524 DNA-binding site [nucleotide binding]; DNA binding site 879090006525 UTRA domain; Region: UTRA; pfam07702 879090006526 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 879090006527 active site 879090006528 DNA polymerase IV; Validated; Region: PRK02406 879090006529 DNA binding site [nucleotide binding] 879090006530 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 879090006531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879090006532 NAD(P) binding site [chemical binding]; other site 879090006533 active site 879090006534 ribonuclease Z; Region: RNase_Z; TIGR02651 879090006535 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 879090006536 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 879090006537 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 879090006538 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 879090006539 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 879090006540 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090006541 Coenzyme A binding pocket [chemical binding]; other site 879090006542 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 879090006543 6-phosphogluconate dehydratase; Region: edd; TIGR01196 879090006544 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 879090006545 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 879090006546 PYR/PP interface [polypeptide binding]; other site 879090006547 dimer interface [polypeptide binding]; other site 879090006548 TPP binding site [chemical binding]; other site 879090006549 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 879090006550 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 879090006551 TPP-binding site [chemical binding]; other site 879090006552 dimer interface [polypeptide binding]; other site 879090006553 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 879090006554 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 879090006555 putative valine binding site [chemical binding]; other site 879090006556 dimer interface [polypeptide binding]; other site 879090006557 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 879090006558 ketol-acid reductoisomerase; Provisional; Region: PRK05479 879090006559 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 879090006560 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 879090006561 2-isopropylmalate synthase; Validated; Region: PRK00915 879090006562 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 879090006563 active site 879090006564 catalytic residues [active] 879090006565 metal binding site [ion binding]; metal-binding site 879090006566 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 879090006567 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 879090006568 tartrate dehydrogenase; Region: TTC; TIGR02089 879090006569 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 879090006570 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 879090006571 substrate binding site [chemical binding]; other site 879090006572 ligand binding site [chemical binding]; other site 879090006573 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 879090006574 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 879090006575 substrate binding site [chemical binding]; other site 879090006576 threonine dehydratase; Validated; Region: PRK08639 879090006577 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 879090006578 tetramer interface [polypeptide binding]; other site 879090006579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090006580 catalytic residue [active] 879090006581 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 879090006582 alpha-acetolactate decarboxylase; Region: acetolac_decarb; TIGR01252 879090006583 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 879090006584 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 879090006585 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 879090006586 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 879090006587 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090006588 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090006589 DNA binding site [nucleotide binding] 879090006590 domain linker motif; other site 879090006591 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 879090006592 dimerization interface [polypeptide binding]; other site 879090006593 ligand binding site [chemical binding]; other site 879090006594 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 879090006595 intersubunit interface [polypeptide binding]; other site 879090006596 active site 879090006597 catalytic residue [active] 879090006598 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 879090006599 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 879090006600 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 879090006601 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 879090006602 active pocket/dimerization site; other site 879090006603 active site 879090006604 phosphorylation site [posttranslational modification] 879090006605 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 879090006606 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 879090006607 putative active site [active] 879090006608 SIS domain; Region: SIS; pfam01380 879090006609 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 879090006610 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 879090006611 dimer interface [polypeptide binding]; other site 879090006612 active site 879090006613 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 879090006614 dimer interface [polypeptide binding]; other site 879090006615 active site 879090006616 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 879090006617 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 879090006618 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 879090006619 active site 879090006620 phosphorylation site [posttranslational modification] 879090006621 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090006622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090006623 DNA-binding site [nucleotide binding]; DNA binding site 879090006624 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 879090006625 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090006626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090006627 DNA-binding site [nucleotide binding]; DNA binding site 879090006628 UTRA domain; Region: UTRA; pfam07702 879090006629 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 879090006630 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090006631 active site 879090006632 catalytic tetrad [active] 879090006633 acetolactate synthase; Reviewed; Region: PRK08617 879090006634 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 879090006635 PYR/PP interface [polypeptide binding]; other site 879090006636 dimer interface [polypeptide binding]; other site 879090006637 TPP binding site [chemical binding]; other site 879090006638 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 879090006639 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 879090006640 TPP-binding site [chemical binding]; other site 879090006641 dimer interface [polypeptide binding]; other site 879090006642 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 879090006643 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 879090006644 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 879090006645 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 879090006646 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090006647 dimer interface [polypeptide binding]; other site 879090006648 conserved gate region; other site 879090006649 ABC-ATPase subunit interface; other site 879090006650 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 879090006651 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090006652 dimer interface [polypeptide binding]; other site 879090006653 conserved gate region; other site 879090006654 ABC-ATPase subunit interface; other site 879090006655 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 879090006656 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 879090006657 active site 879090006658 phosphorylation site [posttranslational modification] 879090006659 intermolecular recognition site; other site 879090006660 dimerization interface [polypeptide binding]; other site 879090006661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090006662 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 879090006663 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 879090006664 dimerization interface [polypeptide binding]; other site 879090006665 Histidine kinase; Region: His_kinase; pfam06580 879090006666 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 879090006667 ATP binding site [chemical binding]; other site 879090006668 Mg2+ binding site [ion binding]; other site 879090006669 G-X-G motif; other site 879090006670 Predicted integral membrane protein [Function unknown]; Region: COG5578 879090006671 Uncharacterized conserved protein [Function unknown]; Region: COG3538 879090006672 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 879090006673 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 879090006674 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 879090006675 active site 879090006676 metal binding site [ion binding]; metal-binding site 879090006677 homodimer interface [polypeptide binding]; other site 879090006678 catalytic site [active] 879090006679 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 879090006680 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 879090006681 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 879090006682 active site 879090006683 catalytic site [active] 879090006684 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 879090006685 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 879090006686 DNA-binding site [nucleotide binding]; DNA binding site 879090006687 RNA-binding motif; other site 879090006688 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 879090006689 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 879090006690 active site 879090006691 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 879090006692 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 879090006693 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 879090006694 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 879090006695 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 879090006696 HIGH motif; other site 879090006697 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 879090006698 active site 879090006699 KMSKS motif; other site 879090006700 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 879090006701 tRNA binding surface [nucleotide binding]; other site 879090006702 anticodon binding site; other site 879090006703 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 879090006704 DivIVA protein; Region: DivIVA; pfam05103 879090006705 DivIVA domain; Region: DivI1A_domain; TIGR03544 879090006706 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 879090006707 HTH domain; Region: HTH_11; pfam08279 879090006708 3H domain; Region: 3H; pfam02829 879090006709 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 879090006710 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 879090006711 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879090006712 catalytic residue [active] 879090006713 L-aspartate oxidase; Provisional; Region: PRK08071 879090006714 L-aspartate oxidase; Provisional; Region: PRK06175 879090006715 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 879090006716 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 879090006717 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 879090006718 dimerization interface [polypeptide binding]; other site 879090006719 active site 879090006720 quinolinate synthetase; Provisional; Region: PRK09375 879090006721 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 879090006722 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 879090006723 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 879090006724 RNA binding surface [nucleotide binding]; other site 879090006725 YGGT family; Region: YGGT; pfam02325 879090006726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 879090006727 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 879090006728 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 879090006729 catalytic residue [active] 879090006730 cell division protein FtsZ; Validated; Region: PRK09330 879090006731 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 879090006732 nucleotide binding site [chemical binding]; other site 879090006733 SulA interaction site; other site 879090006734 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 879090006735 Cell division protein FtsA; Region: FtsA; smart00842 879090006736 Cell division protein FtsA; Region: FtsA; pfam14450 879090006737 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 879090006738 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 879090006739 Cell division protein FtsQ; Region: FtsQ; pfam03799 879090006740 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 879090006741 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 879090006742 active site 879090006743 homodimer interface [polypeptide binding]; other site 879090006744 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 879090006745 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879090006746 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879090006747 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 879090006748 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 879090006749 Mg++ binding site [ion binding]; other site 879090006750 putative catalytic motif [active] 879090006751 putative substrate binding site [chemical binding]; other site 879090006752 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 879090006753 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 879090006754 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879090006755 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879090006756 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 879090006757 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 879090006758 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 879090006759 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 879090006760 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 879090006761 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 879090006762 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 879090006763 MraW methylase family; Region: Methyltransf_5; pfam01795 879090006764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 879090006765 MraZ protein; Region: MraZ; pfam02381 879090006766 MraZ protein; Region: MraZ; pfam02381 879090006767 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090006768 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 879090006769 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 879090006770 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 879090006771 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 879090006772 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 879090006773 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 879090006774 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 879090006775 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 879090006776 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 879090006777 hypothetical protein; Provisional; Region: PRK13670 879090006778 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879090006779 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879090006780 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 879090006781 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090006782 Walker A/P-loop; other site 879090006783 ATP binding site [chemical binding]; other site 879090006784 Q-loop/lid; other site 879090006785 ABC transporter signature motif; other site 879090006786 Walker B; other site 879090006787 D-loop; other site 879090006788 H-loop/switch region; other site 879090006789 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 879090006790 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 879090006791 protein binding site [polypeptide binding]; other site 879090006792 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 879090006793 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 879090006794 active site 879090006795 (T/H)XGH motif; other site 879090006796 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 879090006797 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 879090006798 S-adenosylmethionine binding site [chemical binding]; other site 879090006799 hypothetical protein; Provisional; Region: PRK02886 879090006800 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 879090006801 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 879090006802 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 879090006803 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 879090006804 UbiA prenyltransferase family; Region: UbiA; pfam01040 879090006805 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 879090006806 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 879090006807 Ion transport protein; Region: Ion_trans; pfam00520 879090006808 Ion channel; Region: Ion_trans_2; pfam07885 879090006809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 879090006810 MOSC domain; Region: MOSC; pfam03473 879090006811 3-alpha domain; Region: 3-alpha; pfam03475 879090006812 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 879090006813 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 879090006814 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 879090006815 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13953 879090006816 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 879090006817 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 879090006818 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 879090006819 active site 879090006820 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 879090006821 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 879090006822 ring oligomerisation interface [polypeptide binding]; other site 879090006823 ATP/Mg binding site [chemical binding]; other site 879090006824 stacking interactions; other site 879090006825 hinge regions; other site 879090006826 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 879090006827 oligomerisation interface [polypeptide binding]; other site 879090006828 mobile loop; other site 879090006829 roof hairpin; other site 879090006830 CAAX protease self-immunity; Region: Abi; pfam02517 879090006831 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 879090006832 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 879090006833 CoA binding domain; Region: CoA_binding; pfam02629 879090006834 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 879090006835 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090006836 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090006837 ABC transporter; Region: ABC_tran_2; pfam12848 879090006838 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090006839 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 879090006840 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 879090006841 UGMP family protein; Validated; Region: PRK09604 879090006842 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 879090006843 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 879090006844 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090006845 Coenzyme A binding pocket [chemical binding]; other site 879090006846 Glycoprotease family; Region: Peptidase_M22; pfam00814 879090006847 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 879090006848 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 879090006849 CrcB-like protein; Region: CRCB; cl09114 879090006850 CrcB-like protein; Region: CRCB; cl09114 879090006851 camphor resistance protein CrcB; Provisional; Region: PRK14231 879090006852 Uncharacterized conserved protein [Function unknown]; Region: COG4832 879090006853 Phosphotransferase enzyme family; Region: APH; pfam01636 879090006854 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 879090006855 active site 879090006856 substrate binding site [chemical binding]; other site 879090006857 ATP binding site [chemical binding]; other site 879090006858 Cna protein B-type domain; Region: Cna_B; pfam05738 879090006859 Cna protein B-type domain; Region: Cna_B; pfam05738 879090006860 Cna protein B-type domain; Region: Cna_B; pfam05738 879090006861 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090006862 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 879090006863 non-specific DNA binding site [nucleotide binding]; other site 879090006864 salt bridge; other site 879090006865 sequence-specific DNA binding site [nucleotide binding]; other site 879090006866 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879090006867 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 879090006868 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090006869 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090006870 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 879090006871 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 879090006872 substrate binding pocket [chemical binding]; other site 879090006873 argininosuccinate synthase; Provisional; Region: PRK13820 879090006874 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 879090006875 ANP binding site [chemical binding]; other site 879090006876 Substrate Binding Site II [chemical binding]; other site 879090006877 Substrate Binding Site I [chemical binding]; other site 879090006878 argininosuccinate lyase; Provisional; Region: PRK00855 879090006879 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 879090006880 active sites [active] 879090006881 tetramer interface [polypeptide binding]; other site 879090006882 BCCT family transporter; Region: BCCT; pfam02028 879090006883 hypothetical protein; Provisional; Region: PRK06357 879090006884 active site 879090006885 intersubunit interface [polypeptide binding]; other site 879090006886 Zn2+ binding site [ion binding]; other site 879090006887 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 879090006888 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 879090006889 putative substrate binding site [chemical binding]; other site 879090006890 putative ATP binding site [chemical binding]; other site 879090006891 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 879090006892 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 879090006893 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 879090006894 active site 879090006895 P-loop; other site 879090006896 phosphorylation site [posttranslational modification] 879090006897 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 879090006898 active site 879090006899 phosphorylation site [posttranslational modification] 879090006900 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090006901 PRD domain; Region: PRD; pfam00874 879090006902 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 879090006903 active site 879090006904 P-loop; other site 879090006905 phosphorylation site [posttranslational modification] 879090006906 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 879090006907 active site 879090006908 phosphorylation site [posttranslational modification] 879090006909 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 879090006910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090006911 DNA-binding site [nucleotide binding]; DNA binding site 879090006912 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 879090006913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090006914 homodimer interface [polypeptide binding]; other site 879090006915 catalytic residue [active] 879090006916 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 879090006917 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 879090006918 active site 879090006919 multimer interface [polypeptide binding]; other site 879090006920 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 879090006921 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 879090006922 predicted active site [active] 879090006923 catalytic triad [active] 879090006924 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 879090006925 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 879090006926 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 879090006927 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 879090006928 G1 box; other site 879090006929 GTP/Mg2+ binding site [chemical binding]; other site 879090006930 Switch I region; other site 879090006931 G2 box; other site 879090006932 G3 box; other site 879090006933 Switch II region; other site 879090006934 G4 box; other site 879090006935 G5 box; other site 879090006936 Nucleoside recognition; Region: Gate; pfam07670 879090006937 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 879090006938 Nucleoside recognition; Region: Gate; pfam07670 879090006939 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 879090006940 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 879090006941 putative active site [active] 879090006942 putative metal binding site [ion binding]; other site 879090006943 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 879090006944 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 879090006945 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 879090006946 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 879090006947 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 879090006948 active site 879090006949 dimer interface [polypeptide binding]; other site 879090006950 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 879090006951 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 879090006952 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 879090006953 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 879090006954 dimer interface [polypeptide binding]; other site 879090006955 FMN binding site [chemical binding]; other site 879090006956 NADPH bind site [chemical binding]; other site 879090006957 Helix-turn-helix domain; Region: HTH_17; pfam12728 879090006958 putative heme peroxidase; Provisional; Region: PRK12276 879090006959 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090006960 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090006961 Walker A/P-loop; other site 879090006962 ATP binding site [chemical binding]; other site 879090006963 Q-loop/lid; other site 879090006964 ABC transporter signature motif; other site 879090006965 Walker B; other site 879090006966 D-loop; other site 879090006967 H-loop/switch region; other site 879090006968 FtsX-like permease family; Region: FtsX; pfam02687 879090006969 FtsX-like permease family; Region: FtsX; pfam02687 879090006970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090006971 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 879090006972 Coenzyme A binding pocket [chemical binding]; other site 879090006973 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 879090006974 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 879090006975 active site 879090006976 substrate binding site [chemical binding]; other site 879090006977 metal binding site [ion binding]; metal-binding site 879090006978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 879090006979 YbbR-like protein; Region: YbbR; pfam07949 879090006980 YbbR-like protein; Region: YbbR; pfam07949 879090006981 YbbR-like protein; Region: YbbR; pfam07949 879090006982 Uncharacterized conserved protein [Function unknown]; Region: COG1624 879090006983 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 879090006984 maltose phosphorylase; Provisional; Region: PRK13807 879090006985 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 879090006986 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 879090006987 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 879090006988 Predicted integral membrane protein [Function unknown]; Region: COG5521 879090006989 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 879090006990 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090006991 dimer interface [polypeptide binding]; other site 879090006992 conserved gate region; other site 879090006993 putative PBP binding loops; other site 879090006994 ABC-ATPase subunit interface; other site 879090006995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090006996 dimer interface [polypeptide binding]; other site 879090006997 conserved gate region; other site 879090006998 putative PBP binding loops; other site 879090006999 ABC-ATPase subunit interface; other site 879090007000 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 879090007001 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 879090007002 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 879090007003 homodimer interface [polypeptide binding]; other site 879090007004 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 879090007005 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 879090007006 active site 879090007007 homodimer interface [polypeptide binding]; other site 879090007008 catalytic site [active] 879090007009 CAAX protease self-immunity; Region: Abi; cl00558 879090007010 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090007011 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090007012 DNA binding site [nucleotide binding] 879090007013 domain linker motif; other site 879090007014 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 879090007015 ligand binding site [chemical binding]; other site 879090007016 dimerization interface [polypeptide binding]; other site 879090007017 Amino acid permease; Region: AA_permease_2; pfam13520 879090007018 K+ potassium transporter; Region: K_trans; cl15781 879090007019 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090007020 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090007021 ligand binding site [chemical binding]; other site 879090007022 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090007023 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 879090007024 ligand binding site [chemical binding]; other site 879090007025 flexible hinge region; other site 879090007026 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 879090007027 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 879090007028 intersubunit interface [polypeptide binding]; other site 879090007029 active site 879090007030 zinc binding site [ion binding]; other site 879090007031 Na+ binding site [ion binding]; other site 879090007032 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 879090007033 intersubunit interface [polypeptide binding]; other site 879090007034 active site 879090007035 zinc binding site [ion binding]; other site 879090007036 Na+ binding site [ion binding]; other site 879090007037 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 879090007038 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 879090007039 active site 879090007040 P-loop; other site 879090007041 phosphorylation site [posttranslational modification] 879090007042 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 879090007043 active site 879090007044 phosphorylation site [posttranslational modification] 879090007045 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090007046 HTH domain; Region: HTH_11; pfam08279 879090007047 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090007048 PRD domain; Region: PRD; pfam00874 879090007049 PRD domain; Region: PRD; pfam00874 879090007050 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 879090007051 active site 879090007052 P-loop; other site 879090007053 phosphorylation site [posttranslational modification] 879090007054 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 879090007055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090007056 Walker A/P-loop; other site 879090007057 ATP binding site [chemical binding]; other site 879090007058 Q-loop/lid; other site 879090007059 ABC transporter signature motif; other site 879090007060 Walker B; other site 879090007061 D-loop; other site 879090007062 H-loop/switch region; other site 879090007063 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 879090007064 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 879090007065 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 879090007066 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090007067 Coenzyme A binding pocket [chemical binding]; other site 879090007068 Transcriptional regulators [Transcription]; Region: GntR; COG1802 879090007069 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 879090007070 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 879090007071 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 879090007072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090007073 DNA-binding site [nucleotide binding]; DNA binding site 879090007074 UTRA domain; Region: UTRA; pfam07702 879090007075 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 879090007076 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 879090007077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090007078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090007079 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 879090007080 putative dimerization interface [polypeptide binding]; other site 879090007081 Predicted membrane protein [Function unknown]; Region: COG2855 879090007082 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 879090007083 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 879090007084 putative metal binding site [ion binding]; other site 879090007085 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 879090007086 homodimer interface [polypeptide binding]; other site 879090007087 chemical substrate binding site [chemical binding]; other site 879090007088 oligomer interface [polypeptide binding]; other site 879090007089 metal binding site [ion binding]; metal-binding site 879090007090 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 879090007091 catalytic residues [active] 879090007092 flavodoxin; Provisional; Region: PRK09271 879090007093 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 879090007094 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 879090007095 dimer interface [polypeptide binding]; other site 879090007096 putative radical transfer pathway; other site 879090007097 diiron center [ion binding]; other site 879090007098 tyrosyl radical; other site 879090007099 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 879090007100 Class I ribonucleotide reductase; Region: RNR_I; cd01679 879090007101 active site 879090007102 dimer interface [polypeptide binding]; other site 879090007103 catalytic residues [active] 879090007104 effector binding site; other site 879090007105 R2 peptide binding site; other site 879090007106 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 879090007107 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 879090007108 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 879090007109 CsbD-like; Region: CsbD; cl17424 879090007110 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879090007111 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090007112 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 879090007113 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 879090007114 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 879090007115 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 879090007116 conserved cys residue [active] 879090007117 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 879090007118 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879090007119 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090007120 Cupin domain; Region: Cupin_2; cl17218 879090007121 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 879090007122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090007123 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090007124 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 879090007125 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090007126 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090007127 ligand binding site [chemical binding]; other site 879090007128 flexible hinge region; other site 879090007129 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 879090007130 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 879090007131 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090007132 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 879090007133 dimer interface [polypeptide binding]; other site 879090007134 active site 879090007135 metal binding site [ion binding]; metal-binding site 879090007136 glutathione binding site [chemical binding]; other site 879090007137 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 879090007138 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 879090007139 FMN binding site [chemical binding]; other site 879090007140 substrate binding site [chemical binding]; other site 879090007141 putative catalytic residue [active] 879090007142 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 879090007143 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 879090007144 Coenzyme A transferase; Region: CoA_trans; smart00882 879090007145 Coenzyme A transferase; Region: CoA_trans; cl17247 879090007146 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 879090007147 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 879090007148 Walker A motif; other site 879090007149 ATP binding site [chemical binding]; other site 879090007150 Walker B motif; other site 879090007151 arginine finger; other site 879090007152 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 879090007153 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 879090007154 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 879090007155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 879090007156 metal binding site [ion binding]; metal-binding site 879090007157 active site 879090007158 I-site; other site 879090007159 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 879090007160 classical (c) SDRs; Region: SDR_c; cd05233 879090007161 NAD(P) binding site [chemical binding]; other site 879090007162 active site 879090007163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090007164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090007165 Tic20-like protein; Region: Tic20; pfam09685 879090007166 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 879090007167 Cna protein B-type domain; Region: Cna_B; pfam05738 879090007168 Collagen binding domain; Region: Collagen_bind; pfam05737 879090007169 Cna protein B-type domain; Region: Cna_B; pfam05738 879090007170 Cna protein B-type domain; Region: Cna_B; pfam05738 879090007171 Cna protein B-type domain; Region: Cna_B; pfam05738 879090007172 Cna protein B-type domain; Region: Cna_B; pfam05738 879090007173 Cna protein B-type domain; Region: Cna_B; pfam05738 879090007174 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007175 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007176 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007177 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 879090007178 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 879090007179 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 879090007180 active site 879090007181 catalytic site [active] 879090007182 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 879090007183 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 879090007184 Walker A/P-loop; other site 879090007185 ATP binding site [chemical binding]; other site 879090007186 Q-loop/lid; other site 879090007187 ABC transporter signature motif; other site 879090007188 Walker B; other site 879090007189 D-loop; other site 879090007190 H-loop/switch region; other site 879090007191 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 879090007192 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 879090007193 ABC-ATPase subunit interface; other site 879090007194 dimer interface [polypeptide binding]; other site 879090007195 putative PBP binding regions; other site 879090007196 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 879090007197 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 879090007198 putative ligand binding residues [chemical binding]; other site 879090007199 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 879090007200 heme-binding site [chemical binding]; other site 879090007201 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 879090007202 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 879090007203 heme-binding site [chemical binding]; other site 879090007204 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 879090007205 heme-binding site [chemical binding]; other site 879090007206 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 879090007207 heme uptake protein IsdC; Region: IsdC; TIGR03656 879090007208 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 879090007209 heme-binding site [chemical binding]; other site 879090007210 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 879090007211 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 879090007212 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 879090007213 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 879090007214 active site 879090007215 Zn binding site [ion binding]; other site 879090007216 Competence protein CoiA-like family; Region: CoiA; cl11541 879090007217 Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]; Region: MecA; COG4862 879090007218 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 879090007219 ArsC family; Region: ArsC; pfam03960 879090007220 putative catalytic residues [active] 879090007221 thiol/disulfide switch; other site 879090007222 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 879090007223 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 879090007224 Walker A/P-loop; other site 879090007225 ATP binding site [chemical binding]; other site 879090007226 Q-loop/lid; other site 879090007227 ABC transporter signature motif; other site 879090007228 Walker B; other site 879090007229 D-loop; other site 879090007230 H-loop/switch region; other site 879090007231 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 879090007232 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 879090007233 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 879090007234 Walker A/P-loop; other site 879090007235 ATP binding site [chemical binding]; other site 879090007236 Q-loop/lid; other site 879090007237 ABC transporter signature motif; other site 879090007238 Walker B; other site 879090007239 D-loop; other site 879090007240 H-loop/switch region; other site 879090007241 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 879090007242 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 879090007243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090007244 dimer interface [polypeptide binding]; other site 879090007245 conserved gate region; other site 879090007246 putative PBP binding loops; other site 879090007247 ABC-ATPase subunit interface; other site 879090007248 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 879090007249 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090007250 dimer interface [polypeptide binding]; other site 879090007251 conserved gate region; other site 879090007252 putative PBP binding loops; other site 879090007253 ABC-ATPase subunit interface; other site 879090007254 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 879090007255 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 879090007256 peptide binding site [polypeptide binding]; other site 879090007257 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 879090007258 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 879090007259 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 879090007260 active site 879090007261 HIGH motif; other site 879090007262 dimer interface [polypeptide binding]; other site 879090007263 KMSKS motif; other site 879090007264 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 879090007265 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879090007266 MarR family; Region: MarR; pfam01047 879090007267 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 879090007268 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 879090007269 dimer interface [polypeptide binding]; other site 879090007270 active site 879090007271 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 879090007272 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 879090007273 dimer interface [polypeptide binding]; other site 879090007274 active site 879090007275 CoA binding pocket [chemical binding]; other site 879090007276 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 879090007277 SH3-like domain; Region: SH3_8; pfam13457 879090007278 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 879090007279 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 879090007280 catalytic core [active] 879090007281 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 879090007282 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 879090007283 Clp amino terminal domain; Region: Clp_N; pfam02861 879090007284 Clp amino terminal domain; Region: Clp_N; pfam02861 879090007285 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 879090007286 Walker A motif; other site 879090007287 ATP binding site [chemical binding]; other site 879090007288 Walker B motif; other site 879090007289 arginine finger; other site 879090007290 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 879090007291 Walker A motif; other site 879090007292 ATP binding site [chemical binding]; other site 879090007293 Walker B motif; other site 879090007294 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 879090007295 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 879090007296 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 879090007297 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090007298 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 879090007299 active site 879090007300 motif I; other site 879090007301 motif II; other site 879090007302 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 879090007303 Predicted acetyltransferase [General function prediction only]; Region: COG3393 879090007304 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 879090007305 ferrochelatase; Provisional; Region: PRK12435 879090007306 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 879090007307 C-terminal domain interface [polypeptide binding]; other site 879090007308 active site 879090007309 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 879090007310 active site 879090007311 N-terminal domain interface [polypeptide binding]; other site 879090007312 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 879090007313 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 879090007314 substrate binding site [chemical binding]; other site 879090007315 active site 879090007316 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 879090007317 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 879090007318 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 879090007319 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879090007320 Walker A/P-loop; other site 879090007321 ATP binding site [chemical binding]; other site 879090007322 Q-loop/lid; other site 879090007323 ABC transporter signature motif; other site 879090007324 Walker B; other site 879090007325 D-loop; other site 879090007326 H-loop/switch region; other site 879090007327 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 879090007328 HIT family signature motif; other site 879090007329 catalytic residue [active] 879090007330 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 879090007331 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 879090007332 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 879090007333 SurA N-terminal domain; Region: SurA_N_3; cl07813 879090007334 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 879090007335 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 879090007336 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 879090007337 generic binding surface II; other site 879090007338 generic binding surface I; other site 879090007339 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090007340 Zn2+ binding site [ion binding]; other site 879090007341 Mg2+ binding site [ion binding]; other site 879090007342 Uncharacterized conserved protein [Function unknown]; Region: COG4717 879090007343 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 879090007344 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 879090007345 active site 879090007346 metal binding site [ion binding]; metal-binding site 879090007347 DNA binding site [nucleotide binding] 879090007348 hypothetical protein; Provisional; Region: PRK13676 879090007349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 879090007350 fumarate hydratase; Reviewed; Region: fumC; PRK00485 879090007351 Class II fumarases; Region: Fumarase_classII; cd01362 879090007352 active site 879090007353 tetramer interface [polypeptide binding]; other site 879090007354 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 879090007355 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879090007356 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879090007357 Walker A/P-loop; other site 879090007358 ATP binding site [chemical binding]; other site 879090007359 Q-loop/lid; other site 879090007360 ABC transporter signature motif; other site 879090007361 Walker B; other site 879090007362 D-loop; other site 879090007363 H-loop/switch region; other site 879090007364 Transglycosylase; Region: Transgly; pfam00912 879090007365 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 879090007366 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 879090007367 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 879090007368 Low molecular weight phosphatase family; Region: LMWPc; cl00105 879090007369 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 879090007370 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 879090007371 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 879090007372 Domain of unknown function DUF21; Region: DUF21; pfam01595 879090007373 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 879090007374 Transporter associated domain; Region: CorC_HlyC; smart01091 879090007375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090007376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090007377 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 879090007378 putative dimerization interface [polypeptide binding]; other site 879090007379 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 879090007380 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 879090007381 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 879090007382 active site 879090007383 FMN binding site [chemical binding]; other site 879090007384 substrate binding site [chemical binding]; other site 879090007385 putative catalytic residue [active] 879090007386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879090007387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090007388 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 879090007389 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 879090007390 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 879090007391 shikimate binding site; other site 879090007392 NAD(P) binding site [chemical binding]; other site 879090007393 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 879090007394 putative substrate translocation pore; other site 879090007395 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090007396 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 879090007397 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090007398 putative substrate translocation pore; other site 879090007399 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879090007400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090007401 Walker A/P-loop; other site 879090007402 ATP binding site [chemical binding]; other site 879090007403 Q-loop/lid; other site 879090007404 ABC transporter signature motif; other site 879090007405 Walker B; other site 879090007406 D-loop; other site 879090007407 H-loop/switch region; other site 879090007408 Predicted transcriptional regulators [Transcription]; Region: COG1725 879090007409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879090007410 DNA-binding site [nucleotide binding]; DNA binding site 879090007411 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 879090007412 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 879090007413 DNA binding site [nucleotide binding] 879090007414 active site 879090007415 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 879090007416 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 879090007417 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090007418 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090007419 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 879090007420 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 879090007421 active site 879090007422 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 879090007423 putative dimer interface [polypeptide binding]; other site 879090007424 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090007425 ligand binding site [chemical binding]; other site 879090007426 Zn binding site [ion binding]; other site 879090007427 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 879090007428 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 879090007429 active site 879090007430 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 879090007431 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090007432 active site 879090007433 catalytic tetrad [active] 879090007434 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 879090007435 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 879090007436 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 879090007437 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 879090007438 substrate binding pocket [chemical binding]; other site 879090007439 membrane-bound complex binding site; other site 879090007440 hinge residues; other site 879090007441 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 879090007442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090007443 dimer interface [polypeptide binding]; other site 879090007444 conserved gate region; other site 879090007445 putative PBP binding loops; other site 879090007446 ABC-ATPase subunit interface; other site 879090007447 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 879090007448 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 879090007449 Walker A/P-loop; other site 879090007450 ATP binding site [chemical binding]; other site 879090007451 Q-loop/lid; other site 879090007452 ABC transporter signature motif; other site 879090007453 Walker B; other site 879090007454 D-loop; other site 879090007455 H-loop/switch region; other site 879090007456 aspartate aminotransferase; Provisional; Region: PRK06348 879090007457 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 879090007458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090007459 homodimer interface [polypeptide binding]; other site 879090007460 catalytic residue [active] 879090007461 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 879090007462 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 879090007463 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 879090007464 motif II; other site 879090007465 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 879090007466 intracellular protease, PfpI family; Region: PfpI; TIGR01382 879090007467 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 879090007468 proposed catalytic triad [active] 879090007469 conserved cys residue [active] 879090007470 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 879090007471 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 879090007472 methionine cluster; other site 879090007473 active site 879090007474 phosphorylation site [posttranslational modification] 879090007475 metal binding site [ion binding]; metal-binding site 879090007476 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 879090007477 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090007478 Coenzyme A binding pocket [chemical binding]; other site 879090007479 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 879090007480 esterase; Provisional; Region: PRK10566 879090007481 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 879090007482 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090007483 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 879090007484 motif II; other site 879090007485 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 879090007486 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879090007487 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879090007488 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879090007489 hypothetical protein; Provisional; Region: PRK13673 879090007490 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 879090007491 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 879090007492 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 879090007493 Part of AAA domain; Region: AAA_19; pfam13245 879090007494 Family description; Region: UvrD_C_2; pfam13538 879090007495 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 879090007496 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 879090007497 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 879090007498 IDEAL domain; Region: IDEAL; pfam08858 879090007499 ComK protein; Region: ComK; pfam06338 879090007500 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 879090007501 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879090007502 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 879090007503 non-specific DNA binding site [nucleotide binding]; other site 879090007504 salt bridge; other site 879090007505 sequence-specific DNA binding site [nucleotide binding]; other site 879090007506 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 879090007507 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 879090007508 active site 879090007509 phosphorylation site [posttranslational modification] 879090007510 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 879090007511 active site 879090007512 P-loop; other site 879090007513 phosphorylation site [posttranslational modification] 879090007514 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 879090007515 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 879090007516 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 879090007517 putative substrate binding site [chemical binding]; other site 879090007518 putative ATP binding site [chemical binding]; other site 879090007519 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 879090007520 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 879090007521 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 879090007522 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 879090007523 trimer interface [polypeptide binding]; other site 879090007524 active site 879090007525 G bulge; other site 879090007526 Uncharacterized conserved protein [Function unknown]; Region: COG1683 879090007527 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 879090007528 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 879090007529 non-specific DNA interactions [nucleotide binding]; other site 879090007530 DNA binding site [nucleotide binding] 879090007531 sequence specific DNA binding site [nucleotide binding]; other site 879090007532 putative cAMP binding site [chemical binding]; other site 879090007533 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 879090007534 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 879090007535 substrate binding site [chemical binding]; other site 879090007536 ATP binding site [chemical binding]; other site 879090007537 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 879090007538 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 879090007539 RNA binding surface [nucleotide binding]; other site 879090007540 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 879090007541 active site 879090007542 uracil binding [chemical binding]; other site 879090007543 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 879090007544 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 879090007545 active site 879090007546 non-prolyl cis peptide bond; other site 879090007547 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 879090007548 catalytic residues [active] 879090007549 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 879090007550 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 879090007551 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 879090007552 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 879090007553 Walker A/P-loop; other site 879090007554 ATP binding site [chemical binding]; other site 879090007555 Q-loop/lid; other site 879090007556 ABC transporter signature motif; other site 879090007557 Walker B; other site 879090007558 D-loop; other site 879090007559 H-loop/switch region; other site 879090007560 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 879090007561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090007562 dimer interface [polypeptide binding]; other site 879090007563 conserved gate region; other site 879090007564 putative PBP binding loops; other site 879090007565 ABC-ATPase subunit interface; other site 879090007566 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 879090007567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090007568 dimer interface [polypeptide binding]; other site 879090007569 conserved gate region; other site 879090007570 putative PBP binding loops; other site 879090007571 ABC-ATPase subunit interface; other site 879090007572 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 879090007573 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 879090007574 substrate binding pocket [chemical binding]; other site 879090007575 membrane-bound complex binding site; other site 879090007576 hinge residues; other site 879090007577 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090007578 Coenzyme A binding pocket [chemical binding]; other site 879090007579 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 879090007580 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 879090007581 Transcriptional regulator [Transcription]; Region: LysR; COG0583 879090007582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 879090007583 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 879090007584 dimerization interface [polypeptide binding]; other site 879090007585 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 879090007586 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 879090007587 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 879090007588 active site 879090007589 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 879090007590 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090007591 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 879090007592 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090007593 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 879090007594 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 879090007595 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 879090007596 active site 879090007597 trimer interface [polypeptide binding]; other site 879090007598 allosteric site; other site 879090007599 active site lid [active] 879090007600 hexamer (dimer of trimers) interface [polypeptide binding]; other site 879090007601 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090007602 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 879090007603 active site 879090007604 motif I; other site 879090007605 motif II; other site 879090007606 Predicted membrane protein [Function unknown]; Region: COG1511 879090007607 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 879090007608 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 879090007609 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 879090007610 Predicted transcriptional regulator [Transcription]; Region: COG1959 879090007611 Transcriptional regulator; Region: Rrf2; pfam02082 879090007612 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 879090007613 L-tyrosine decarboxylase; Provisional; Region: PRK13520 879090007614 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 879090007615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090007616 catalytic residue [active] 879090007617 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 879090007618 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090007619 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 879090007620 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 879090007621 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 879090007622 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 879090007623 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 879090007624 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 879090007625 active site 879090007626 dimer interface [polypeptide binding]; other site 879090007627 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 879090007628 dimer interface [polypeptide binding]; other site 879090007629 active site 879090007630 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 879090007631 nudix motif; other site 879090007632 general stress protein 13; Validated; Region: PRK08059 879090007633 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 879090007634 RNA binding site [nucleotide binding]; other site 879090007635 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 879090007636 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 879090007637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090007638 homodimer interface [polypeptide binding]; other site 879090007639 catalytic residue [active] 879090007640 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 879090007641 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090007642 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090007643 Walker A/P-loop; other site 879090007644 ATP binding site [chemical binding]; other site 879090007645 Q-loop/lid; other site 879090007646 ABC transporter signature motif; other site 879090007647 Walker B; other site 879090007648 D-loop; other site 879090007649 H-loop/switch region; other site 879090007650 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 879090007651 active site 879090007652 P-loop; other site 879090007653 phosphorylation site [posttranslational modification] 879090007654 aspartate kinase; Reviewed; Region: PRK09034 879090007655 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 879090007656 putative catalytic residues [active] 879090007657 putative nucleotide binding site [chemical binding]; other site 879090007658 putative aspartate binding site [chemical binding]; other site 879090007659 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 879090007660 allosteric regulatory residue; other site 879090007661 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 879090007662 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 879090007663 active site 879090007664 drug efflux system protein MdtG; Provisional; Region: PRK09874 879090007665 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 879090007666 putative substrate translocation pore; other site 879090007667 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 879090007668 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 879090007669 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 879090007670 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 879090007671 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 879090007672 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 879090007673 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 879090007674 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 879090007675 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 879090007676 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12585 879090007677 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 879090007678 CoenzymeA binding site [chemical binding]; other site 879090007679 subunit interaction site [polypeptide binding]; other site 879090007680 PHB binding site; other site 879090007681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1963 879090007682 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 879090007683 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 879090007684 Cl- selectivity filter; other site 879090007685 Cl- binding residues [ion binding]; other site 879090007686 pore gating glutamate residue; other site 879090007687 dimer interface [polypeptide binding]; other site 879090007688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 879090007689 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 879090007690 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090007691 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 879090007692 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879090007693 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090007694 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 879090007695 NADH(P)-binding; Region: NAD_binding_10; pfam13460 879090007696 NAD(P) binding site [chemical binding]; other site 879090007697 putative active site [active] 879090007698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4844 879090007699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4837 879090007700 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090007701 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007702 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007703 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007704 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007705 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090007706 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 879090007707 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 879090007708 tetramer interfaces [polypeptide binding]; other site 879090007709 binuclear metal-binding site [ion binding]; other site 879090007710 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 879090007711 Domain of unknown function DUF21; Region: DUF21; pfam01595 879090007712 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 879090007713 Transporter associated domain; Region: CorC_HlyC; smart01091 879090007714 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 879090007715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090007716 Coenzyme A binding pocket [chemical binding]; other site 879090007717 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 879090007718 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 879090007719 active site 879090007720 motif I; other site 879090007721 motif II; other site 879090007722 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 879090007723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 879090007724 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 879090007725 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 879090007726 active site 879090007727 metal binding site [ion binding]; metal-binding site 879090007728 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 879090007729 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 879090007730 Predicted membrane protein [Function unknown]; Region: COG4272 879090007731 Uncharacterized conserved protein [Function unknown]; Region: COG1801 879090007732 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 879090007733 FeS assembly protein SufB; Region: sufB; TIGR01980 879090007734 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 879090007735 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 879090007736 trimerization site [polypeptide binding]; other site 879090007737 active site 879090007738 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 879090007739 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 879090007740 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879090007741 catalytic residue [active] 879090007742 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 879090007743 FeS assembly protein SufD; Region: sufD; TIGR01981 879090007744 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 879090007745 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 879090007746 Walker A/P-loop; other site 879090007747 ATP binding site [chemical binding]; other site 879090007748 Q-loop/lid; other site 879090007749 ABC transporter signature motif; other site 879090007750 Walker B; other site 879090007751 D-loop; other site 879090007752 H-loop/switch region; other site 879090007753 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 879090007754 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 879090007755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090007756 ABC-ATPase subunit interface; other site 879090007757 putative PBP binding loops; other site 879090007758 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 879090007759 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 879090007760 Walker A/P-loop; other site 879090007761 ATP binding site [chemical binding]; other site 879090007762 Q-loop/lid; other site 879090007763 ABC transporter signature motif; other site 879090007764 Walker B; other site 879090007765 D-loop; other site 879090007766 H-loop/switch region; other site 879090007767 NIL domain; Region: NIL; pfam09383 879090007768 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 879090007769 dimer interface [polypeptide binding]; other site 879090007770 phosphorylation site [posttranslational modification] 879090007771 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 879090007772 ATP binding site [chemical binding]; other site 879090007773 Mg2+ binding site [ion binding]; other site 879090007774 G-X-G motif; other site 879090007775 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090007776 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 879090007777 active site 879090007778 phosphorylation site [posttranslational modification] 879090007779 intermolecular recognition site; other site 879090007780 dimerization interface [polypeptide binding]; other site 879090007781 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 879090007782 DNA binding site [nucleotide binding] 879090007783 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 879090007784 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 879090007785 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 879090007786 catalytic residues [active] 879090007787 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 879090007788 lipoyl attachment site [posttranslational modification]; other site 879090007789 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 879090007790 ArsC family; Region: ArsC; pfam03960 879090007791 putative ArsC-like catalytic residues; other site 879090007792 putative TRX-like catalytic residues [active] 879090007793 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 879090007794 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 879090007795 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 879090007796 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 879090007797 Walker A/P-loop; other site 879090007798 ATP binding site [chemical binding]; other site 879090007799 Q-loop/lid; other site 879090007800 ABC transporter signature motif; other site 879090007801 Walker B; other site 879090007802 D-loop; other site 879090007803 H-loop/switch region; other site 879090007804 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 879090007805 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 879090007806 ABC-ATPase subunit interface; other site 879090007807 dimer interface [polypeptide binding]; other site 879090007808 putative PBP binding regions; other site 879090007809 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 879090007810 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 879090007811 intersubunit interface [polypeptide binding]; other site 879090007812 Predicted esterase [General function prediction only]; Region: COG0627 879090007813 S-formylglutathione hydrolase; Region: PLN02442 879090007814 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 879090007815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090007816 catalytic residue [active] 879090007817 SdpI/YhfL protein family; Region: SdpI; pfam13630 879090007818 CAT RNA binding domain; Region: CAT_RBD; smart01061 879090007819 transcriptional antiterminator BglG; Provisional; Region: PRK09772 879090007820 PRD domain; Region: PRD; pfam00874 879090007821 PRD domain; Region: PRD; pfam00874 879090007822 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 879090007823 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 879090007824 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 879090007825 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 879090007826 Predicted transcriptional regulator [Transcription]; Region: COG2378 879090007827 HTH domain; Region: HTH_11; pfam08279 879090007828 WYL domain; Region: WYL; pfam13280 879090007829 Uncharacterized conserved protein [Function unknown]; Region: COG1434 879090007830 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 879090007831 putative active site [active] 879090007832 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 879090007833 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 879090007834 active site 879090007835 catalytic site [active] 879090007836 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 879090007837 putative metal binding site [ion binding]; other site 879090007838 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 879090007839 putative metal binding site [ion binding]; other site 879090007840 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090007841 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 879090007842 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 879090007843 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 879090007844 active site 879090007845 catalytic site [active] 879090007846 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 879090007847 putative metal binding site [ion binding]; other site 879090007848 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 879090007849 non-specific DNA binding site [nucleotide binding]; other site 879090007850 salt bridge; other site 879090007851 sequence-specific DNA binding site [nucleotide binding]; other site 879090007852 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 879090007853 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 879090007854 SmpB-tmRNA interface; other site 879090007855 ribonuclease R; Region: RNase_R; TIGR02063 879090007856 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 879090007857 RNB domain; Region: RNB; pfam00773 879090007858 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 879090007859 RNA binding site [nucleotide binding]; other site 879090007860 Esterase/lipase [General function prediction only]; Region: COG1647 879090007861 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 879090007862 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 879090007863 Preprotein translocase SecG subunit; Region: SecG; cl09123 879090007864 Esterase/lipase [General function prediction only]; Region: COG1647 879090007865 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 879090007866 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 879090007867 PGAP1-like protein; Region: PGAP1; pfam07819 879090007868 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 879090007869 enolase; Provisional; Region: eno; PRK00077 879090007870 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 879090007871 dimer interface [polypeptide binding]; other site 879090007872 metal binding site [ion binding]; metal-binding site 879090007873 substrate binding pocket [chemical binding]; other site 879090007874 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 879090007875 phosphoglyceromutase; Provisional; Region: PRK05434 879090007876 triosephosphate isomerase; Provisional; Region: PRK14567 879090007877 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 879090007878 substrate binding site [chemical binding]; other site 879090007879 dimer interface [polypeptide binding]; other site 879090007880 catalytic triad [active] 879090007881 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 879090007882 Phosphoglycerate kinase; Region: PGK; pfam00162 879090007883 substrate binding site [chemical binding]; other site 879090007884 hinge regions; other site 879090007885 ADP binding site [chemical binding]; other site 879090007886 catalytic site [active] 879090007887 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 879090007888 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 879090007889 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 879090007890 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 879090007891 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 879090007892 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 879090007893 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 879090007894 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 879090007895 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090007896 DNA binding site [nucleotide binding] 879090007897 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 879090007898 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 879090007899 active site 879090007900 dimer interface [polypeptide binding]; other site 879090007901 MMPL family; Region: MMPL; pfam03176 879090007902 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 879090007903 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090007904 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090007905 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 879090007906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 879090007907 Chitin binding domain; Region: Chitin_bind_3; pfam03067 879090007908 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 879090007909 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 879090007910 Interdomain contacts; other site 879090007911 Cytokine receptor motif; other site 879090007912 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 879090007913 aromatic chitin/cellulose binding site residues [chemical binding]; other site 879090007914 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 879090007915 aromatic chitin/cellulose binding site residues [chemical binding]; other site 879090007916 Clp protease; Region: CLP_protease; pfam00574 879090007917 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 879090007918 oligomer interface [polypeptide binding]; other site 879090007919 active site residues [active] 879090007920 amino acid transporter; Region: 2A0306; TIGR00909 879090007921 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 879090007922 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 879090007923 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 879090007924 Substrate binding site [chemical binding]; other site 879090007925 Leucine rich repeat; Region: LRR_8; pfam13855 879090007926 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090007927 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 879090007928 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 879090007929 active site 879090007930 FMN binding site [chemical binding]; other site 879090007931 substrate binding site [chemical binding]; other site 879090007932 homotetramer interface [polypeptide binding]; other site 879090007933 catalytic residue [active] 879090007934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 879090007935 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 879090007936 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 879090007937 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 879090007938 phosphate binding site [ion binding]; other site 879090007939 putative substrate binding pocket [chemical binding]; other site 879090007940 dimer interface [polypeptide binding]; other site 879090007941 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 879090007942 AAA domain; Region: AAA_18; pfam13238 879090007943 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 879090007944 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 879090007945 active site 879090007946 substrate binding site [chemical binding]; other site 879090007947 metal binding site [ion binding]; metal-binding site 879090007948 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 879090007949 active site 879090007950 catalytic residues [active] 879090007951 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 879090007952 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 879090007953 NAD binding site [chemical binding]; other site 879090007954 homodimer interface [polypeptide binding]; other site 879090007955 active site 879090007956 substrate binding site [chemical binding]; other site 879090007957 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 879090007958 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879090007959 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090007960 TPR repeat; Region: TPR_11; pfam13414 879090007961 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 879090007962 binding surface 879090007963 TPR motif; other site 879090007964 Tetratricopeptide repeat; Region: TPR_12; pfam13424 879090007965 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 879090007966 binding surface 879090007967 TPR motif; other site 879090007968 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 879090007969 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 879090007970 putative trimer interface [polypeptide binding]; other site 879090007971 putative CoA binding site [chemical binding]; other site 879090007972 pyrophosphatase PpaX; Provisional; Region: PRK13288 879090007973 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 879090007974 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 879090007975 motif II; other site 879090007976 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 879090007977 HPr kinase/phosphorylase; Provisional; Region: PRK05428 879090007978 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 879090007979 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 879090007980 Hpr binding site; other site 879090007981 active site 879090007982 homohexamer subunit interaction site [polypeptide binding]; other site 879090007983 Predicted membrane protein [Function unknown]; Region: COG1950 879090007984 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 879090007985 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 879090007986 Uncharacterized conserved protein [Function unknown]; Region: COG3595 879090007987 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 879090007988 Uncharacterized conserved protein [Function unknown]; Region: COG3595 879090007989 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 879090007990 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 879090007991 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879090007992 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879090007993 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 879090007994 excinuclease ABC subunit B; Provisional; Region: PRK05298 879090007995 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 879090007996 ATP binding site [chemical binding]; other site 879090007997 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 879090007998 nucleotide binding region [chemical binding]; other site 879090007999 ATP-binding site [chemical binding]; other site 879090008000 Ultra-violet resistance protein B; Region: UvrB; pfam12344 879090008001 UvrB/uvrC motif; Region: UVR; pfam02151 879090008002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CsbA; COG4897 879090008003 HD containing hydrolase-like enzyme; Region: HD_2; pfam12917 879090008004 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 879090008005 dimerization interface [polypeptide binding]; other site 879090008006 putative DNA binding site [nucleotide binding]; other site 879090008007 putative Zn2+ binding site [ion binding]; other site 879090008008 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 879090008009 PhoU domain; Region: PhoU; pfam01895 879090008010 PhoU domain; Region: PhoU; pfam01895 879090008011 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 879090008012 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 879090008013 Walker A/P-loop; other site 879090008014 ATP binding site [chemical binding]; other site 879090008015 Q-loop/lid; other site 879090008016 ABC transporter signature motif; other site 879090008017 Walker B; other site 879090008018 D-loop; other site 879090008019 H-loop/switch region; other site 879090008020 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 879090008021 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 879090008022 Walker A/P-loop; other site 879090008023 ATP binding site [chemical binding]; other site 879090008024 Q-loop/lid; other site 879090008025 ABC transporter signature motif; other site 879090008026 Walker B; other site 879090008027 D-loop; other site 879090008028 H-loop/switch region; other site 879090008029 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 879090008030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090008031 dimer interface [polypeptide binding]; other site 879090008032 conserved gate region; other site 879090008033 putative PBP binding loops; other site 879090008034 ABC-ATPase subunit interface; other site 879090008035 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 879090008036 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090008037 dimer interface [polypeptide binding]; other site 879090008038 conserved gate region; other site 879090008039 putative PBP binding loops; other site 879090008040 ABC-ATPase subunit interface; other site 879090008041 PBP superfamily domain; Region: PBP_like_2; cl17296 879090008042 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 879090008043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 879090008044 HAMP domain; Region: HAMP; pfam00672 879090008045 dimerization interface [polypeptide binding]; other site 879090008046 PAS domain; Region: PAS; smart00091 879090008047 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 879090008048 dimer interface [polypeptide binding]; other site 879090008049 phosphorylation site [posttranslational modification] 879090008050 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 879090008051 ATP binding site [chemical binding]; other site 879090008052 Mg2+ binding site [ion binding]; other site 879090008053 G-X-G motif; other site 879090008054 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090008055 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 879090008056 active site 879090008057 phosphorylation site [posttranslational modification] 879090008058 intermolecular recognition site; other site 879090008059 dimerization interface [polypeptide binding]; other site 879090008060 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 879090008061 DNA binding site [nucleotide binding] 879090008062 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 879090008063 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 879090008064 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 879090008065 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 879090008066 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 879090008067 putative active site [active] 879090008068 catalytic site [active] 879090008069 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 879090008070 putative active site [active] 879090008071 catalytic site [active] 879090008072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 879090008073 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 879090008074 Peptidase family M23; Region: Peptidase_M23; pfam01551 879090008075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 879090008076 NlpC/P60 family; Region: NLPC_P60; pfam00877 879090008077 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 879090008078 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 879090008079 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 879090008080 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090008081 Walker A/P-loop; other site 879090008082 ATP binding site [chemical binding]; other site 879090008083 Q-loop/lid; other site 879090008084 ABC transporter signature motif; other site 879090008085 Walker B; other site 879090008086 D-loop; other site 879090008087 H-loop/switch region; other site 879090008088 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879090008089 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879090008090 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879090008091 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879090008092 peptide chain release factor 2; Validated; Region: prfB; PRK00578 879090008093 This domain is found in peptide chain release factors; Region: PCRF; smart00937 879090008094 RF-1 domain; Region: RF-1; pfam00472 879090008095 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 879090008096 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 879090008097 nucleotide binding region [chemical binding]; other site 879090008098 helicase superfamily c-terminal domain; Region: HELICc; smart00490 879090008099 ATP-binding site [chemical binding]; other site 879090008100 SEC-C motif; Region: SEC-C; pfam02810 879090008101 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 879090008102 30S subunit binding site; other site 879090008103 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 879090008104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090008105 active site 879090008106 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 879090008107 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 879090008108 ATP binding site [chemical binding]; other site 879090008109 putative Mg++ binding site [ion binding]; other site 879090008110 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 879090008111 nucleotide binding region [chemical binding]; other site 879090008112 ATP-binding site [chemical binding]; other site 879090008113 EDD domain protein, DegV family; Region: DegV; TIGR00762 879090008114 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 879090008115 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 879090008116 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 879090008117 active site 879090008118 phosphorylation site [posttranslational modification] 879090008119 intermolecular recognition site; other site 879090008120 dimerization interface [polypeptide binding]; other site 879090008121 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 879090008122 DNA binding residues [nucleotide binding] 879090008123 dimerization interface [polypeptide binding]; other site 879090008124 Uncharacterized conserved protein [Function unknown]; Region: COG1739 879090008125 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 879090008126 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 879090008127 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 879090008128 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 879090008129 Transcriptional regulator [Transcription]; Region: LytR; COG1316 879090008130 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 879090008131 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 879090008132 Mg++ binding site [ion binding]; other site 879090008133 putative catalytic motif [active] 879090008134 substrate binding site [chemical binding]; other site 879090008135 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 879090008136 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 879090008137 active site 879090008138 octamer interface [polypeptide binding]; other site 879090008139 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 879090008140 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 879090008141 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090008142 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090008143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 879090008144 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 879090008145 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 879090008146 dimer interface [polypeptide binding]; other site 879090008147 ssDNA binding site [nucleotide binding]; other site 879090008148 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090008149 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 879090008150 rod shape-determining protein Mbl; Provisional; Region: PRK13928 879090008151 MreB and similar proteins; Region: MreB_like; cd10225 879090008152 nucleotide binding site [chemical binding]; other site 879090008153 Mg binding site [ion binding]; other site 879090008154 putative protofilament interaction site [polypeptide binding]; other site 879090008155 RodZ interaction site [polypeptide binding]; other site 879090008156 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 879090008157 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 879090008158 hinge; other site 879090008159 active site 879090008160 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 879090008161 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 879090008162 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 879090008163 gamma subunit interface [polypeptide binding]; other site 879090008164 epsilon subunit interface [polypeptide binding]; other site 879090008165 LBP interface [polypeptide binding]; other site 879090008166 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 879090008167 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 879090008168 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 879090008169 alpha subunit interaction interface [polypeptide binding]; other site 879090008170 Walker A motif; other site 879090008171 ATP binding site [chemical binding]; other site 879090008172 Walker B motif; other site 879090008173 inhibitor binding site; inhibition site 879090008174 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 879090008175 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 879090008176 core domain interface [polypeptide binding]; other site 879090008177 delta subunit interface [polypeptide binding]; other site 879090008178 epsilon subunit interface [polypeptide binding]; other site 879090008179 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 879090008180 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 879090008181 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 879090008182 beta subunit interaction interface [polypeptide binding]; other site 879090008183 Walker A motif; other site 879090008184 ATP binding site [chemical binding]; other site 879090008185 Walker B motif; other site 879090008186 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 879090008187 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 879090008188 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 879090008189 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 879090008190 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 879090008191 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 879090008192 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 879090008193 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 879090008194 ATP synthase I chain; Region: ATP_synt_I; pfam03899 879090008195 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 879090008196 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 879090008197 active site 879090008198 homodimer interface [polypeptide binding]; other site 879090008199 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879090008200 active site 879090008201 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 879090008202 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 879090008203 dimer interface [polypeptide binding]; other site 879090008204 active site 879090008205 glycine-pyridoxal phosphate binding site [chemical binding]; other site 879090008206 folate binding site [chemical binding]; other site 879090008207 Low molecular weight phosphatase family; Region: LMWPc; cd00115 879090008208 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 879090008209 active site 879090008210 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 879090008211 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 879090008212 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 879090008213 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 879090008214 S-adenosylmethionine binding site [chemical binding]; other site 879090008215 peptide chain release factor 1; Validated; Region: prfA; PRK00591 879090008216 This domain is found in peptide chain release factors; Region: PCRF; smart00937 879090008217 RF-1 domain; Region: RF-1; pfam00472 879090008218 thymidine kinase; Provisional; Region: PRK04296 879090008219 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 879090008220 ATP binding site [chemical binding]; other site 879090008221 Walker A motif; other site 879090008222 Walker B motif; other site 879090008223 homoserine kinase; Provisional; Region: PRK01212 879090008224 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 879090008225 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 879090008226 threonine synthase; Reviewed; Region: PRK06721 879090008227 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 879090008228 homodimer interface [polypeptide binding]; other site 879090008229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090008230 catalytic residue [active] 879090008231 homoserine dehydrogenase; Provisional; Region: PRK06349 879090008232 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 879090008233 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 879090008234 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 879090008235 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 879090008236 Predicted membrane protein [Function unknown]; Region: COG2246 879090008237 GtrA-like protein; Region: GtrA; pfam04138 879090008238 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 879090008239 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 879090008240 Ligand binding site; other site 879090008241 Putative Catalytic site; other site 879090008242 DXD motif; other site 879090008243 transcription termination factor Rho; Provisional; Region: rho; PRK09376 879090008244 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 879090008245 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 879090008246 RNA binding site [nucleotide binding]; other site 879090008247 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 879090008248 multimer interface [polypeptide binding]; other site 879090008249 Walker A motif; other site 879090008250 ATP binding site [chemical binding]; other site 879090008251 Walker B motif; other site 879090008252 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 879090008253 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 879090008254 hinge; other site 879090008255 active site 879090008256 Predicted integral membrane protein [Function unknown]; Region: COG0392 879090008257 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 879090008258 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 879090008259 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 879090008260 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 879090008261 putative ADP-binding pocket [chemical binding]; other site 879090008262 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 879090008263 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 879090008264 intersubunit interface [polypeptide binding]; other site 879090008265 active site 879090008266 zinc binding site [ion binding]; other site 879090008267 Na+ binding site [ion binding]; other site 879090008268 putative lipid kinase; Reviewed; Region: PRK13055 879090008269 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 879090008270 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 879090008271 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 879090008272 amidase catalytic site [active] 879090008273 Zn binding residues [ion binding]; other site 879090008274 substrate binding site [chemical binding]; other site 879090008275 SH3-like domain; Region: SH3_8; pfam13457 879090008276 SH3-like domain; Region: SH3_8; pfam13457 879090008277 SH3-like domain; Region: SH3_8; pfam13457 879090008278 SH3-like domain; Region: SH3_8; pfam13457 879090008279 CTP synthetase; Validated; Region: pyrG; PRK05380 879090008280 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 879090008281 Catalytic site [active] 879090008282 active site 879090008283 UTP binding site [chemical binding]; other site 879090008284 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 879090008285 active site 879090008286 putative oxyanion hole; other site 879090008287 catalytic triad [active] 879090008288 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 879090008289 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 879090008290 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 879090008291 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 879090008292 active site 879090008293 HIGH motif; other site 879090008294 KMSK motif region; other site 879090008295 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 879090008296 tRNA binding surface [nucleotide binding]; other site 879090008297 anticodon binding site; other site 879090008298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4506 879090008299 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 879090008300 Peptidase family M50; Region: Peptidase_M50; pfam02163 879090008301 active site 879090008302 putative substrate binding region [chemical binding]; other site 879090008303 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 879090008304 active site 1 [active] 879090008305 dimer interface [polypeptide binding]; other site 879090008306 hexamer interface [polypeptide binding]; other site 879090008307 active site 2 [active] 879090008308 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 879090008309 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090008310 Zn2+ binding site [ion binding]; other site 879090008311 Mg2+ binding site [ion binding]; other site 879090008312 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 879090008313 conserved hypothetical protein TIGR01655; Region: yxeA_fam 879090008314 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 879090008315 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 879090008316 peptide binding site [polypeptide binding]; other site 879090008317 Predicted integral membrane protein [Function unknown]; Region: COG5658 879090008318 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 879090008319 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 879090008320 catalytic triad [active] 879090008321 metal binding site [ion binding]; metal-binding site 879090008322 conserved cis-peptide bond; other site 879090008323 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 879090008324 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 879090008325 folate binding site [chemical binding]; other site 879090008326 NADP+ binding site [chemical binding]; other site 879090008327 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 879090008328 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 879090008329 putative NAD(P) binding site [chemical binding]; other site 879090008330 dimer interface [polypeptide binding]; other site 879090008331 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 879090008332 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 879090008333 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 879090008334 Collagen binding domain; Region: Collagen_bind; pfam05737 879090008335 Collagen binding domain; Region: Collagen_bind; pfam05737 879090008336 Collagen binding domain; Region: Collagen_bind; pfam05737 879090008337 Cna protein B-type domain; Region: Cna_B; pfam05738 879090008338 Cna protein B-type domain; Region: Cna_B; pfam05738 879090008339 Cna protein B-type domain; Region: Cna_B; pfam05738 879090008340 Cna protein B-type domain; Region: Cna_B; pfam05738 879090008341 Cna protein B-type domain; Region: Cna_B; pfam05738 879090008342 Cna protein B-type domain; Region: Cna_B; pfam05738 879090008343 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090008344 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090008345 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 879090008346 active site 879090008347 motif I; other site 879090008348 motif II; other site 879090008349 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 879090008350 Uncharacterized conserved protein [Function unknown]; Region: COG1359 879090008351 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879090008352 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879090008353 Walker A/P-loop; other site 879090008354 ATP binding site [chemical binding]; other site 879090008355 Q-loop/lid; other site 879090008356 ABC transporter signature motif; other site 879090008357 Walker B; other site 879090008358 D-loop; other site 879090008359 H-loop/switch region; other site 879090008360 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879090008361 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 879090008362 FtsX-like permease family; Region: FtsX; pfam02687 879090008363 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 879090008364 dimerization interface [polypeptide binding]; other site 879090008365 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 879090008366 dimer interface [polypeptide binding]; other site 879090008367 phosphorylation site [posttranslational modification] 879090008368 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 879090008369 ATP binding site [chemical binding]; other site 879090008370 Mg2+ binding site [ion binding]; other site 879090008371 G-X-G motif; other site 879090008372 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090008373 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 879090008374 active site 879090008375 phosphorylation site [posttranslational modification] 879090008376 intermolecular recognition site; other site 879090008377 dimerization interface [polypeptide binding]; other site 879090008378 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 879090008379 DNA binding site [nucleotide binding] 879090008380 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 879090008381 Uncharacterized conserved protein [Function unknown]; Region: COG2427 879090008382 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 879090008383 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 879090008384 catalytic loop [active] 879090008385 iron binding site [ion binding]; other site 879090008386 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 879090008387 4Fe-4S binding domain; Region: Fer4; pfam00037 879090008388 4Fe-4S binding domain; Region: Fer4; pfam00037 879090008389 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 879090008390 [4Fe-4S] binding site [ion binding]; other site 879090008391 molybdopterin cofactor binding site; other site 879090008392 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 879090008393 molybdopterin cofactor binding site; other site 879090008394 Uncharacterized conserved protein [Function unknown]; Region: COG1912 879090008395 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 879090008396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090008397 putative substrate translocation pore; other site 879090008398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090008399 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090008400 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 879090008401 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 879090008402 Phage holin; Region: Phage_holin_5; pfam06946 879090008403 Protein gp23 (Bacteriophage A118); Region: Phage_Gp23; pfam10669 879090008404 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 879090008405 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 879090008406 Phage tail protein; Region: Sipho_tail; pfam05709 879090008407 tape measure domain; Region: tape_meas_nterm; TIGR02675 879090008408 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; cl09914 879090008409 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 879090008410 Phage protein Gp14; Region: Phage_Gp14; pfam10666 879090008411 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 879090008412 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 879090008413 Minor capsid protein from bacteriophage; Region: Minor_capsid_3; pfam12691 879090008414 Minor capsid protein; Region: Minor_capsid_2; pfam11114 879090008415 Minor capsid protein; Region: Minor_capsid_1; pfam10665 879090008416 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 879090008417 LEM-like domain of lamina-associated polypeptide 2 (LAP2) and similar proteins; Region: LEM_like; cd12935 879090008418 Phage capsid family; Region: Phage_capsid; pfam05065 879090008419 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 879090008420 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 879090008421 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 879090008422 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 879090008423 Phage terminase large subunit; Region: Terminase_3; cl12054 879090008424 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 879090008425 DNA binding residues [nucleotide binding] 879090008426 Terminase small subunit; Region: Terminase_2; pfam03592 879090008427 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 879090008428 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 879090008429 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 879090008430 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 879090008431 dimer interface [polypeptide binding]; other site 879090008432 ssDNA binding site [nucleotide binding]; other site 879090008433 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879090008434 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 879090008435 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 879090008436 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 879090008437 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 879090008438 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 879090008439 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 879090008440 Protein gp45 of Bacteriophage A118; Region: Phage-A118_gp45; pfam10653 879090008441 Helix-turn-helix domain; Region: HTH_17; pfam12728 879090008442 AntA/AntB antirepressor; Region: AntA; pfam08346 879090008443 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 879090008444 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 879090008445 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879090008446 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 879090008447 non-specific DNA binding site [nucleotide binding]; other site 879090008448 salt bridge; other site 879090008449 sequence-specific DNA binding site [nucleotide binding]; other site 879090008450 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879090008451 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 879090008452 non-specific DNA binding site [nucleotide binding]; other site 879090008453 salt bridge; other site 879090008454 sequence-specific DNA binding site [nucleotide binding]; other site 879090008455 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 879090008456 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 879090008457 Int/Topo IB signature motif; other site 879090008458 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 879090008459 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 879090008460 Walker A motif; other site 879090008461 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 879090008462 SH3-like domain; Region: SH3_8; pfam13457 879090008463 SH3-like domain; Region: SH3_8; pfam13457 879090008464 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 879090008465 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090008466 active site 879090008467 catalytic tetrad [active] 879090008468 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 879090008469 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 879090008470 DNA binding residues [nucleotide binding] 879090008471 putative dimer interface [polypeptide binding]; other site 879090008472 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 879090008473 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 879090008474 23S rRNA interface [nucleotide binding]; other site 879090008475 L3 interface [polypeptide binding]; other site 879090008476 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 879090008477 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 879090008478 dimerization interface 3.5A [polypeptide binding]; other site 879090008479 active site 879090008480 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 879090008481 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 879090008482 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 879090008483 Walker A/P-loop; other site 879090008484 ATP binding site [chemical binding]; other site 879090008485 Q-loop/lid; other site 879090008486 ABC transporter signature motif; other site 879090008487 Walker B; other site 879090008488 D-loop; other site 879090008489 H-loop/switch region; other site 879090008490 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 879090008491 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 879090008492 Walker A/P-loop; other site 879090008493 ATP binding site [chemical binding]; other site 879090008494 Q-loop/lid; other site 879090008495 ABC transporter signature motif; other site 879090008496 Walker B; other site 879090008497 D-loop; other site 879090008498 H-loop/switch region; other site 879090008499 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 879090008500 MgtC family; Region: MgtC; pfam02308 879090008501 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 879090008502 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 879090008503 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 879090008504 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 879090008505 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 879090008506 alphaNTD - beta interaction site [polypeptide binding]; other site 879090008507 alphaNTD homodimer interface [polypeptide binding]; other site 879090008508 alphaNTD - beta' interaction site [polypeptide binding]; other site 879090008509 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 879090008510 30S ribosomal protein S11; Validated; Region: PRK05309 879090008511 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 879090008512 30S ribosomal protein S13; Region: bact_S13; TIGR03631 879090008513 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 879090008514 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 879090008515 rRNA binding site [nucleotide binding]; other site 879090008516 predicted 30S ribosome binding site; other site 879090008517 adenylate kinase; Reviewed; Region: adk; PRK00279 879090008518 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 879090008519 AMP-binding site [chemical binding]; other site 879090008520 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 879090008521 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 879090008522 SecY translocase; Region: SecY; pfam00344 879090008523 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 879090008524 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 879090008525 23S rRNA binding site [nucleotide binding]; other site 879090008526 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 879090008527 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 879090008528 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 879090008529 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 879090008530 23S rRNA interface [nucleotide binding]; other site 879090008531 L5 interface [polypeptide binding]; other site 879090008532 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 879090008533 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 879090008534 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 879090008535 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 879090008536 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 879090008537 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 879090008538 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 879090008539 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 879090008540 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 879090008541 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 879090008542 RNA binding site [nucleotide binding]; other site 879090008543 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 879090008544 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 879090008545 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 879090008546 23S rRNA interface [nucleotide binding]; other site 879090008547 putative translocon interaction site; other site 879090008548 signal recognition particle (SRP54) interaction site; other site 879090008549 L23 interface [polypeptide binding]; other site 879090008550 trigger factor interaction site; other site 879090008551 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 879090008552 23S rRNA interface [nucleotide binding]; other site 879090008553 5S rRNA interface [nucleotide binding]; other site 879090008554 putative antibiotic binding site [chemical binding]; other site 879090008555 L25 interface [polypeptide binding]; other site 879090008556 L27 interface [polypeptide binding]; other site 879090008557 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 879090008558 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 879090008559 G-X-X-G motif; other site 879090008560 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 879090008561 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 879090008562 putative translocon binding site; other site 879090008563 protein-rRNA interface [nucleotide binding]; other site 879090008564 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 879090008565 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 879090008566 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 879090008567 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 879090008568 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 879090008569 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 879090008570 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 879090008571 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 879090008572 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 879090008573 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 879090008574 UbiA prenyltransferase family; Region: UbiA; pfam01040 879090008575 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 879090008576 ApbE family; Region: ApbE; pfam02424 879090008577 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 879090008578 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 879090008579 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 879090008580 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 879090008581 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879090008582 Predicted membrane protein [Function unknown]; Region: COG2259 879090008583 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 879090008584 trimer interface [polypeptide binding]; other site 879090008585 Predicted membrane protein [Function unknown]; Region: COG4769 879090008586 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 879090008587 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 879090008588 substrate binding pocket [chemical binding]; other site 879090008589 chain length determination region; other site 879090008590 substrate-Mg2+ binding site; other site 879090008591 catalytic residues [active] 879090008592 aspartate-rich region 1; other site 879090008593 active site lid residues [active] 879090008594 aspartate-rich region 2; other site 879090008595 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 879090008596 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 879090008597 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 879090008598 active site 879090008599 metal binding site [ion binding]; metal-binding site 879090008600 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 879090008601 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 879090008602 hypothetical protein; Provisional; Region: PRK02947 879090008603 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 879090008604 putative active site [active] 879090008605 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 879090008606 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 879090008607 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 879090008608 active site 879090008609 substrate binding pocket [chemical binding]; other site 879090008610 homodimer interaction site [polypeptide binding]; other site 879090008611 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 879090008612 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 879090008613 active site 879090008614 P-loop; other site 879090008615 phosphorylation site [posttranslational modification] 879090008616 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 879090008617 active site 879090008618 phosphorylation site [posttranslational modification] 879090008619 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090008620 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090008621 PRD domain; Region: PRD; pfam00874 879090008622 PRD domain; Region: PRD; pfam00874 879090008623 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 879090008624 active site 879090008625 P-loop; other site 879090008626 phosphorylation site [posttranslational modification] 879090008627 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 879090008628 active site 879090008629 phosphorylation site [posttranslational modification] 879090008630 elongation factor Tu; Reviewed; Region: PRK00049 879090008631 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 879090008632 G1 box; other site 879090008633 GEF interaction site [polypeptide binding]; other site 879090008634 GTP/Mg2+ binding site [chemical binding]; other site 879090008635 Switch I region; other site 879090008636 G2 box; other site 879090008637 G3 box; other site 879090008638 Switch II region; other site 879090008639 G4 box; other site 879090008640 G5 box; other site 879090008641 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 879090008642 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 879090008643 Antibiotic Binding Site [chemical binding]; other site 879090008644 elongation factor G; Reviewed; Region: PRK00007 879090008645 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 879090008646 G1 box; other site 879090008647 putative GEF interaction site [polypeptide binding]; other site 879090008648 GTP/Mg2+ binding site [chemical binding]; other site 879090008649 Switch I region; other site 879090008650 G2 box; other site 879090008651 G3 box; other site 879090008652 Switch II region; other site 879090008653 G4 box; other site 879090008654 G5 box; other site 879090008655 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 879090008656 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 879090008657 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 879090008658 30S ribosomal protein S7; Validated; Region: PRK05302 879090008659 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 879090008660 S17 interaction site [polypeptide binding]; other site 879090008661 S8 interaction site; other site 879090008662 16S rRNA interaction site [nucleotide binding]; other site 879090008663 streptomycin interaction site [chemical binding]; other site 879090008664 23S rRNA interaction site [nucleotide binding]; other site 879090008665 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 879090008666 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 879090008667 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879090008668 Zn2+ binding site [ion binding]; other site 879090008669 Mg2+ binding site [ion binding]; other site 879090008670 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 879090008671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090008672 Coenzyme A binding pocket [chemical binding]; other site 879090008673 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 879090008674 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 879090008675 substrate binding site [chemical binding]; other site 879090008676 hexamer interface [polypeptide binding]; other site 879090008677 metal binding site [ion binding]; metal-binding site 879090008678 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 879090008679 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 879090008680 TPP-binding site [chemical binding]; other site 879090008681 dimer interface [polypeptide binding]; other site 879090008682 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 879090008683 PYR/PP interface [polypeptide binding]; other site 879090008684 dimer interface [polypeptide binding]; other site 879090008685 TPP binding site [chemical binding]; other site 879090008686 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 879090008687 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 879090008688 substrate binding site [chemical binding]; other site 879090008689 hexamer interface [polypeptide binding]; other site 879090008690 metal binding site [ion binding]; metal-binding site 879090008691 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 879090008692 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 879090008693 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 879090008694 putative NAD(P) binding site [chemical binding]; other site 879090008695 catalytic Zn binding site [ion binding]; other site 879090008696 structural Zn binding site [ion binding]; other site 879090008697 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 879090008698 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 879090008699 putative NAD(P) binding site [chemical binding]; other site 879090008700 catalytic Zn binding site [ion binding]; other site 879090008701 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 879090008702 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 879090008703 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 879090008704 active site 879090008705 P-loop; other site 879090008706 phosphorylation site [posttranslational modification] 879090008707 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 879090008708 active site 879090008709 phosphorylation site [posttranslational modification] 879090008710 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090008711 PRD domain; Region: PRD; pfam00874 879090008712 PRD domain; Region: PRD; pfam00874 879090008713 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 879090008714 active site 879090008715 P-loop; other site 879090008716 phosphorylation site [posttranslational modification] 879090008717 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 879090008718 active site 879090008719 phosphorylation site [posttranslational modification] 879090008720 Predicted membrane protein [Function unknown]; Region: COG4905 879090008721 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 879090008722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 879090008723 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 879090008724 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879090008725 active site 879090008726 Helix-turn-helix domain; Region: HTH_18; pfam12833 879090008727 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 879090008728 Ligand Binding Site [chemical binding]; other site 879090008729 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 879090008730 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 879090008731 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 879090008732 active site 879090008733 DNA binding site [nucleotide binding] 879090008734 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 879090008735 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 879090008736 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879090008737 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 879090008738 active site 879090008739 phosphorylation site [posttranslational modification] 879090008740 intermolecular recognition site; other site 879090008741 dimerization interface [polypeptide binding]; other site 879090008742 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 879090008743 DNA binding site [nucleotide binding] 879090008744 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 879090008745 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 879090008746 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 879090008747 Ligand Binding Site [chemical binding]; other site 879090008748 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 879090008749 GAF domain; Region: GAF_3; pfam13492 879090008750 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 879090008751 dimer interface [polypeptide binding]; other site 879090008752 phosphorylation site [posttranslational modification] 879090008753 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 879090008754 ATP binding site [chemical binding]; other site 879090008755 Mg2+ binding site [ion binding]; other site 879090008756 G-X-G motif; other site 879090008757 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 879090008758 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 879090008759 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879090008760 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 879090008761 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 879090008762 active site 879090008763 P-loop; other site 879090008764 phosphorylation site [posttranslational modification] 879090008765 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090008766 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090008767 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 879090008768 methionine cluster; other site 879090008769 active site 879090008770 phosphorylation site [posttranslational modification] 879090008771 metal binding site [ion binding]; metal-binding site 879090008772 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 879090008773 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 879090008774 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 879090008775 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 879090008776 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879090008777 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 879090008778 Soluble P-type ATPase [General function prediction only]; Region: COG4087 879090008779 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 879090008780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090008781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090008782 autolysin; Reviewed; Region: PRK06347 879090008783 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 879090008784 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090008785 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090008786 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090008787 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879090008788 Protein of unknown function (DUF970); Region: DUF970; pfam06153 879090008789 thymidylate kinase; Validated; Region: tmk; PRK00698 879090008790 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 879090008791 TMP-binding site; other site 879090008792 ATP-binding site [chemical binding]; other site 879090008793 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 879090008794 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 879090008795 homodimer interface [polypeptide binding]; other site 879090008796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090008797 catalytic residue [active] 879090008798 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 879090008799 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 879090008800 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 879090008801 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 879090008802 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 879090008803 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 879090008804 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 879090008805 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 879090008806 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 879090008807 putative active site [active] 879090008808 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 879090008809 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 879090008810 active site 879090008811 motif I; other site 879090008812 motif II; other site 879090008813 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 879090008814 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 879090008815 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 879090008816 active site 879090008817 catalytic tetrad [active] 879090008818 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 879090008819 recombination protein RecR; Reviewed; Region: recR; PRK00076 879090008820 RecR protein; Region: RecR; pfam02132 879090008821 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 879090008822 putative active site [active] 879090008823 putative metal-binding site [ion binding]; other site 879090008824 tetramer interface [polypeptide binding]; other site 879090008825 hypothetical protein; Validated; Region: PRK00153 879090008826 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 879090008827 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 879090008828 Walker A motif; other site 879090008829 ATP binding site [chemical binding]; other site 879090008830 Walker B motif; other site 879090008831 arginine finger; other site 879090008832 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 879090008833 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 879090008834 Protein of unknown function (DUF3188); Region: DUF3188; pfam11384 879090008835 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090008836 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090008837 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 879090008838 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 879090008839 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 879090008840 N- and C-terminal domain interface [polypeptide binding]; other site 879090008841 active site 879090008842 catalytic site [active] 879090008843 metal binding site [ion binding]; metal-binding site 879090008844 carbohydrate binding site [chemical binding]; other site 879090008845 ATP binding site [chemical binding]; other site 879090008846 SH3-like domain; Region: SH3_8; pfam13457 879090008847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 879090008848 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 879090008849 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090008850 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 879090008851 Walker A/P-loop; other site 879090008852 ATP binding site [chemical binding]; other site 879090008853 Q-loop/lid; other site 879090008854 ABC transporter signature motif; other site 879090008855 Walker B; other site 879090008856 D-loop; other site 879090008857 H-loop/switch region; other site 879090008858 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 879090008859 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090008860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090008861 Walker A/P-loop; other site 879090008862 ATP binding site [chemical binding]; other site 879090008863 Q-loop/lid; other site 879090008864 ABC transporter signature motif; other site 879090008865 Walker B; other site 879090008866 D-loop; other site 879090008867 H-loop/switch region; other site 879090008868 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 879090008869 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 879090008870 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 879090008871 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 879090008872 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 879090008873 nucleoside/Zn binding site; other site 879090008874 dimer interface [polypeptide binding]; other site 879090008875 catalytic motif [active] 879090008876 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 879090008877 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 879090008878 active site 879090008879 acyl-activating enzyme (AAE) consensus motif; other site 879090008880 putative CoA binding site [chemical binding]; other site 879090008881 AMP binding site [chemical binding]; other site 879090008882 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 879090008883 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 879090008884 active site 879090008885 trimer interface [polypeptide binding]; other site 879090008886 allosteric site; other site 879090008887 active site lid [active] 879090008888 hexamer (dimer of trimers) interface [polypeptide binding]; other site 879090008889 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 879090008890 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 879090008891 DNA binding residues [nucleotide binding] 879090008892 drug binding residues [chemical binding]; other site 879090008893 dimer interface [polypeptide binding]; other site 879090008894 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 879090008895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 879090008896 Coenzyme A binding pocket [chemical binding]; other site 879090008897 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 879090008898 dimer interface [polypeptide binding]; other site 879090008899 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879090008900 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 879090008901 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879090008902 MarR family; Region: MarR; pfam01047 879090008903 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 879090008904 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 879090008905 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 879090008906 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 879090008907 DNA binding residues [nucleotide binding] 879090008908 putative dimer interface [polypeptide binding]; other site 879090008909 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 879090008910 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 879090008911 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 879090008912 active site 879090008913 motif I; other site 879090008914 motif II; other site 879090008915 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 879090008916 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 879090008917 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 879090008918 putative active site [active] 879090008919 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 879090008920 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 879090008921 active site 879090008922 phosphorylation site [posttranslational modification] 879090008923 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 879090008924 active site 879090008925 P-loop; other site 879090008926 phosphorylation site [posttranslational modification] 879090008927 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 879090008928 alpha-mannosidase; Provisional; Region: PRK09819 879090008929 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 879090008930 active site 879090008931 metal binding site [ion binding]; metal-binding site 879090008932 catalytic site [active] 879090008933 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 879090008934 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 879090008935 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 879090008936 active site 879090008937 homodimer interface [polypeptide binding]; other site 879090008938 catalytic site [active] 879090008939 glycerate kinase; Region: TIGR00045 879090008940 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090008941 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090008942 DNA binding site [nucleotide binding] 879090008943 domain linker motif; other site 879090008944 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 879090008945 putative dimerization interface [polypeptide binding]; other site 879090008946 putative ligand binding site [chemical binding]; other site 879090008947 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 879090008948 Domain of unknown function DUF21; Region: DUF21; pfam01595 879090008949 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 879090008950 Transporter associated domain; Region: CorC_HlyC; pfam03471 879090008951 NAD-dependent deacetylase; Provisional; Region: PRK00481 879090008952 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 879090008953 NAD+ binding site [chemical binding]; other site 879090008954 substrate binding site [chemical binding]; other site 879090008955 putative Zn binding site [ion binding]; other site 879090008956 Pathogenicity locus; Region: Cdd1; pfam11731 879090008957 drug efflux system protein MdtG; Provisional; Region: PRK09874 879090008958 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 879090008959 putative substrate translocation pore; other site 879090008960 Src Homology 3 domain superfamily; Region: SH3; cl17036 879090008961 Variant SH3 domain; Region: SH3_2; pfam07653 879090008962 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 879090008963 active site 879090008964 intersubunit interactions; other site 879090008965 catalytic residue [active] 879090008966 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879090008967 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879090008968 ligand binding site [chemical binding]; other site 879090008969 flexible hinge region; other site 879090008970 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 879090008971 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090008972 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090008973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090008974 Walker A/P-loop; other site 879090008975 ATP binding site [chemical binding]; other site 879090008976 Q-loop/lid; other site 879090008977 ABC transporter signature motif; other site 879090008978 Walker B; other site 879090008979 D-loop; other site 879090008980 H-loop/switch region; other site 879090008981 TfoX C-terminal domain; Region: TfoX_C; pfam04994 879090008982 seryl-tRNA synthetase; Provisional; Region: PRK05431 879090008983 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 879090008984 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 879090008985 dimer interface [polypeptide binding]; other site 879090008986 active site 879090008987 motif 1; other site 879090008988 motif 2; other site 879090008989 motif 3; other site 879090008990 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 879090008991 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 879090008992 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 879090008993 Glutamine amidotransferase class-I; Region: GATase; pfam00117 879090008994 glutamine binding [chemical binding]; other site 879090008995 catalytic triad [active] 879090008996 aminodeoxychorismate synthase; Provisional; Region: PRK07508 879090008997 chorismate binding enzyme; Region: Chorismate_bind; cl10555 879090008998 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 879090008999 substrate-cofactor binding pocket; other site 879090009000 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 879090009001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879090009002 catalytic residue [active] 879090009003 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090009004 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090009005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090009006 Walker A/P-loop; other site 879090009007 ATP binding site [chemical binding]; other site 879090009008 Q-loop/lid; other site 879090009009 ABC transporter signature motif; other site 879090009010 Walker B; other site 879090009011 D-loop; other site 879090009012 H-loop/switch region; other site 879090009013 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879090009014 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879090009015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879090009016 Walker A/P-loop; other site 879090009017 ATP binding site [chemical binding]; other site 879090009018 Q-loop/lid; other site 879090009019 ABC transporter signature motif; other site 879090009020 Walker B; other site 879090009021 D-loop; other site 879090009022 H-loop/switch region; other site 879090009023 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 879090009024 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 879090009025 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 879090009026 Predicted acyl esterases [General function prediction only]; Region: COG2936 879090009027 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 879090009028 DNA topoisomerase III; Provisional; Region: PRK07726 879090009029 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 879090009030 active site 879090009031 putative interdomain interaction site [polypeptide binding]; other site 879090009032 putative metal-binding site [ion binding]; other site 879090009033 putative nucleotide binding site [chemical binding]; other site 879090009034 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 879090009035 domain I; other site 879090009036 DNA binding groove [nucleotide binding] 879090009037 phosphate binding site [ion binding]; other site 879090009038 domain II; other site 879090009039 domain III; other site 879090009040 nucleotide binding site [chemical binding]; other site 879090009041 catalytic site [active] 879090009042 domain IV; other site 879090009043 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 879090009044 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 879090009045 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 879090009046 ATP binding site [chemical binding]; other site 879090009047 putative Mg++ binding site [ion binding]; other site 879090009048 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 879090009049 nucleotide binding region [chemical binding]; other site 879090009050 ATP-binding site [chemical binding]; other site 879090009051 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 879090009052 HRDC domain; Region: HRDC; pfam00570 879090009053 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 879090009054 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 879090009055 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 879090009056 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 879090009057 active site 879090009058 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 879090009059 putative ADP-ribose binding site [chemical binding]; other site 879090009060 putative active site [active] 879090009061 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 879090009062 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090009063 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090009064 ABC transporter; Region: ABC_tran_2; pfam12848 879090009065 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879090009066 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 879090009067 beta-galactosidase; Region: BGL; TIGR03356 879090009068 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 879090009069 active site 879090009070 P-loop; other site 879090009071 phosphorylation site [posttranslational modification] 879090009072 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 879090009073 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090009074 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090009075 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090009076 nucleotide binding site [chemical binding]; other site 879090009077 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 879090009078 methionine cluster; other site 879090009079 active site 879090009080 phosphorylation site [posttranslational modification] 879090009081 metal binding site [ion binding]; metal-binding site 879090009082 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 879090009083 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 879090009084 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 879090009085 putative active site [active] 879090009086 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 879090009087 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 879090009088 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 879090009089 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 879090009090 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879090009091 Walker A/P-loop; other site 879090009092 ATP binding site [chemical binding]; other site 879090009093 Q-loop/lid; other site 879090009094 ABC transporter signature motif; other site 879090009095 Walker B; other site 879090009096 D-loop; other site 879090009097 H-loop/switch region; other site 879090009098 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 879090009099 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 879090009100 ATP-grasp domain; Region: ATP-grasp_4; cl17255 879090009101 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 879090009102 beta-galactosidase; Region: BGL; TIGR03356 879090009103 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 879090009104 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 879090009105 active site turn [active] 879090009106 phosphorylation site [posttranslational modification] 879090009107 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 879090009108 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 879090009109 HPr interaction site; other site 879090009110 glycerol kinase (GK) interaction site [polypeptide binding]; other site 879090009111 active site 879090009112 phosphorylation site [posttranslational modification] 879090009113 transcriptional antiterminator BglG; Provisional; Region: PRK09772 879090009114 CAT RNA binding domain; Region: CAT_RBD; smart01061 879090009115 PRD domain; Region: PRD; pfam00874 879090009116 PRD domain; Region: PRD; pfam00874 879090009117 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 879090009118 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 879090009119 putative substrate translocation pore; other site 879090009120 GTP-binding protein YchF; Reviewed; Region: PRK09601 879090009121 YchF GTPase; Region: YchF; cd01900 879090009122 G1 box; other site 879090009123 GTP/Mg2+ binding site [chemical binding]; other site 879090009124 Switch I region; other site 879090009125 G2 box; other site 879090009126 Switch II region; other site 879090009127 G3 box; other site 879090009128 G4 box; other site 879090009129 G5 box; other site 879090009130 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 879090009131 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 879090009132 methionine cluster; other site 879090009133 active site 879090009134 phosphorylation site [posttranslational modification] 879090009135 metal binding site [ion binding]; metal-binding site 879090009136 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 879090009137 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 879090009138 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 879090009139 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 879090009140 active site 879090009141 P-loop; other site 879090009142 phosphorylation site [posttranslational modification] 879090009143 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 879090009144 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 879090009145 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 879090009146 HTH domain; Region: HTH_11; pfam08279 879090009147 Mga helix-turn-helix domain; Region: Mga; pfam05043 879090009148 PRD domain; Region: PRD; pfam00874 879090009149 PRD domain; Region: PRD; pfam00874 879090009150 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 879090009151 active site 879090009152 P-loop; other site 879090009153 phosphorylation site [posttranslational modification] 879090009154 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 879090009155 active site 879090009156 phosphorylation site [posttranslational modification] 879090009157 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 879090009158 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 879090009159 tetramer interface [polypeptide binding]; other site 879090009160 heme binding pocket [chemical binding]; other site 879090009161 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 879090009162 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 879090009163 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 879090009164 active site turn [active] 879090009165 phosphorylation site [posttranslational modification] 879090009166 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 879090009167 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 879090009168 HPr interaction site; other site 879090009169 glycerol kinase (GK) interaction site [polypeptide binding]; other site 879090009170 active site 879090009171 phosphorylation site [posttranslational modification] 879090009172 transcriptional antiterminator BglG; Provisional; Region: PRK09772 879090009173 CAT RNA binding domain; Region: CAT_RBD; pfam03123 879090009174 PRD domain; Region: PRD; pfam00874 879090009175 PRD domain; Region: PRD; pfam00874 879090009176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4481 879090009177 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 879090009178 ParB-like nuclease domain; Region: ParB; smart00470 879090009179 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 879090009180 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 879090009181 P-loop; other site 879090009182 Magnesium ion binding site [ion binding]; other site 879090009183 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 879090009184 Magnesium ion binding site [ion binding]; other site 879090009185 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 879090009186 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 879090009187 non-specific DNA binding site [nucleotide binding]; other site 879090009188 salt bridge; other site 879090009189 sequence-specific DNA binding site [nucleotide binding]; other site 879090009190 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 879090009191 ParB-like nuclease domain; Region: ParBc; pfam02195 879090009192 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 879090009193 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 879090009194 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 879090009195 putative active site [active] 879090009196 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879090009197 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879090009198 nucleotide binding site [chemical binding]; other site 879090009199 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 879090009200 active site 879090009201 phosphorylation site [posttranslational modification] 879090009202 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 879090009203 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 879090009204 motif II; other site 879090009205 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 879090009206 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 879090009207 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 879090009208 active site 879090009209 P-loop; other site 879090009210 phosphorylation site [posttranslational modification] 879090009211 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879090009212 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090009213 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 879090009214 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 879090009215 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 879090009216 putative active site cavity [active] 879090009217 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 879090009218 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 879090009219 S-adenosylmethionine binding site [chemical binding]; other site 879090009220 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 879090009221 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 879090009222 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 879090009223 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 879090009224 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 879090009225 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 879090009226 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 879090009227 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 879090009228 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 879090009229 trmE is a tRNA modification GTPase; Region: trmE; cd04164 879090009230 G1 box; other site 879090009231 GTP/Mg2+ binding site [chemical binding]; other site 879090009232 Switch I region; other site 879090009233 G2 box; other site 879090009234 Switch II region; other site 879090009235 G3 box; other site 879090009236 G4 box; other site 879090009237 G5 box; other site 879090009238 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 879090009239 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 879090009240 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 879090009241 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879090009242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879090009243 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 879090009244 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 879090009245 NADP binding site [chemical binding]; other site 879090009246 homodimer interface [polypeptide binding]; other site 879090009247 active site 879090009248 substrate binding site [chemical binding]; other site 879090009249 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 879090009250 D-galactonate transporter; Region: 2A0114; TIGR00893 879090009251 putative substrate translocation pore; other site 879090009252 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 879090009253 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 879090009254 metal binding site [ion binding]; metal-binding site 879090009255 dimer interface [polypeptide binding]; other site 879090009256 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 879090009257 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 879090009258 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 879090009259 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 879090009260 metal binding site [ion binding]; metal-binding site 879090009261 dimer interface [polypeptide binding]; other site 879090009262 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 879090009263 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 879090009264 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 879090009265 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 879090009266 Leucine-rich repeats; other site 879090009267 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090009268 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879090009269 Substrate binding site [chemical binding]; other site 879090009270 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090009271 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090009272 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090009273 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 879090009274 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 879090009275 Uncharacterized conserved protein [Function unknown]; Region: COG4198 879090009276 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 879090009277 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 879090009278 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 879090009279 putative ligand binding site [chemical binding]; other site 879090009280 putative NAD binding site [chemical binding]; other site 879090009281 putative catalytic site [active] 879090009282 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 879090009283 L-serine binding site [chemical binding]; other site 879090009284 ACT domain interface; other site 879090009285 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 879090009286 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879090009287 catalytic residue [active] 879090009288 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 879090009289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090009290 putative substrate translocation pore; other site 879090009291 Transcriptional regulators [Transcription]; Region: MarR; COG1846 879090009292 MarR family; Region: MarR_2; pfam12802 879090009293 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 879090009294 dimer interface [polypeptide binding]; other site 879090009295 FMN binding site [chemical binding]; other site 879090009296 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 879090009297 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879090009298 catalytic residues [active] 879090009299 beta-phosphoglucomutase; Region: bPGM; TIGR01990 879090009300 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 879090009301 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 879090009302 motif II; other site 879090009303 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 879090009304 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 879090009305 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 879090009306 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 879090009307 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 879090009308 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879090009309 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879090009310 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 879090009311 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 879090009312 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 879090009313 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 879090009314 putative NAD(P) binding site [chemical binding]; other site 879090009315 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 879090009316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090009317 dimer interface [polypeptide binding]; other site 879090009318 conserved gate region; other site 879090009319 putative PBP binding loops; other site 879090009320 ABC-ATPase subunit interface; other site 879090009321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 879090009322 dimer interface [polypeptide binding]; other site 879090009323 conserved gate region; other site 879090009324 putative PBP binding loops; other site 879090009325 ABC-ATPase subunit interface; other site 879090009326 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 879090009327 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 879090009328 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 879090009329 sucrose phosphorylase; Provisional; Region: PRK13840 879090009330 active site 879090009331 homodimer interface [polypeptide binding]; other site 879090009332 catalytic site [active] 879090009333 Transcriptional regulators [Transcription]; Region: PurR; COG1609 879090009334 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 879090009335 DNA binding site [nucleotide binding] 879090009336 domain linker motif; other site 879090009337 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 879090009338 putative dimerization interface [polypeptide binding]; other site 879090009339 putative ligand binding site [chemical binding]; other site 879090009340 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 879090009341 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 879090009342 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 879090009343 Coenzyme A binding pocket [chemical binding]; other site 879090009344 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 879090009345 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090009346 putative substrate translocation pore; other site 879090009347 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 879090009348 Domain of unknown function (DUF718); Region: DUF718; cl01281 879090009349 rhamnulose-1-phosphate aldolase; Region: rhamnu_1P_ald; TIGR02624 879090009350 intersubunit interface [polypeptide binding]; other site 879090009351 active site 879090009352 Zn2+ binding site [ion binding]; other site 879090009353 L-rhamnose isomerase; Provisional; Region: PRK01076 879090009354 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 879090009355 N- and C-terminal domain interface [polypeptide binding]; other site 879090009356 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 879090009357 active site 879090009358 putative catalytic site [active] 879090009359 metal binding site [ion binding]; metal-binding site 879090009360 ATP binding site [chemical binding]; other site 879090009361 carbohydrate binding site [chemical binding]; other site 879090009362 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 879090009363 putative substrate translocation pore; other site 879090009364 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879090009365 Cupin domain; Region: Cupin_2; pfam07883 879090009366 Helix-turn-helix domain; Region: HTH_18; pfam12833 879090009367 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 879090009368 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 879090009369 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 879090009370 G-X-X-G motif; other site 879090009371 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 879090009372 RxxxH motif; other site 879090009373 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 879090009374 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 879090009375 ribonuclease P; Reviewed; Region: rnpA; PRK00499 879090009376 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399