-- dump date 20140619_133711 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1030009000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1030009000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1030009000003 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 1030009000004 Walker A motif; other site 1030009000005 ATP binding site [chemical binding]; other site 1030009000006 Walker B motif; other site 1030009000007 arginine finger; other site 1030009000008 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 1030009000009 DnaA box-binding interface [nucleotide binding]; other site 1030009000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1030009000011 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 1030009000012 putative DNA binding surface [nucleotide binding]; other site 1030009000013 dimer interface [polypeptide binding]; other site 1030009000014 beta-clamp/clamp loader binding surface; other site 1030009000015 beta-clamp/translesion DNA polymerase binding surface; other site 1030009000016 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1030009000017 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1030009000018 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 1030009000019 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1030009000020 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1030009000021 Walker A/P-loop; other site 1030009000022 ATP binding site [chemical binding]; other site 1030009000023 Q-loop/lid; other site 1030009000024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009000025 ABC transporter signature motif; other site 1030009000026 Walker B; other site 1030009000027 D-loop; other site 1030009000028 H-loop/switch region; other site 1030009000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1030009000030 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 1030009000031 Mg2+ binding site [ion binding]; other site 1030009000032 G-X-G motif; other site 1030009000033 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 1030009000034 anchoring element; other site 1030009000035 dimer interface [polypeptide binding]; other site 1030009000036 ATP binding site [chemical binding]; other site 1030009000037 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 1030009000038 active site 1030009000039 putative metal-binding site [ion binding]; other site 1030009000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1030009000041 DNA gyrase subunit A; Validated; Region: PRK05560 1030009000042 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 1030009000043 CAP-like domain; other site 1030009000044 active site 1030009000045 primary dimer interface [polypeptide binding]; other site 1030009000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1030009000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1030009000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1030009000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1030009000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1030009000051 cardiolipin synthetase; Reviewed; Region: PRK12452 1030009000052 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1030009000053 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1030009000054 putative active site [active] 1030009000055 catalytic site [active] 1030009000056 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1030009000057 putative active site [active] 1030009000058 catalytic site [active] 1030009000059 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1030009000060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009000061 Coenzyme A binding pocket [chemical binding]; other site 1030009000062 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1030009000063 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1030009000064 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1030009000065 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 1030009000066 diphosphomevalonate decarboxylase; Region: PLN02407 1030009000067 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 1030009000068 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1030009000069 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 1030009000070 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1030009000071 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1030009000072 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1030009000073 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 1030009000074 D-pathway; other site 1030009000075 Putative ubiquinol binding site [chemical binding]; other site 1030009000076 Low-spin heme (heme b) binding site [chemical binding]; other site 1030009000077 Putative water exit pathway; other site 1030009000078 Binuclear center (heme o3/CuB) [ion binding]; other site 1030009000079 K-pathway; other site 1030009000080 Putative proton exit pathway; other site 1030009000081 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 1030009000082 Subunit I/III interface [polypeptide binding]; other site 1030009000083 Subunit III/IV interface [polypeptide binding]; other site 1030009000084 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 1030009000085 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1030009000086 beta-galactosidase; Region: BGL; TIGR03356 1030009000087 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1030009000088 Bacterial SH3 domain; Region: SH3_3; pfam08239 1030009000089 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 1030009000090 putative active site [active] 1030009000091 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009000092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009000093 DNA-binding site [nucleotide binding]; DNA binding site 1030009000094 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1030009000095 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 1030009000096 active site 1030009000097 active pocket/dimerization site; other site 1030009000098 phosphorylation site [posttranslational modification] 1030009000099 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 1030009000100 active site 1030009000101 phosphorylation site [posttranslational modification] 1030009000102 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1030009000103 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1030009000104 hypothetical protein; Provisional; Region: PRK02947 1030009000105 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 1030009000106 putative active site [active] 1030009000107 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1030009000108 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1030009000109 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 1030009000110 active site turn [active] 1030009000111 phosphorylation site [posttranslational modification] 1030009000112 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1030009000113 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 1030009000114 HPr interaction site; other site 1030009000115 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1030009000116 active site 1030009000117 phosphorylation site [posttranslational modification] 1030009000118 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1030009000119 putative dimer interface [polypeptide binding]; other site 1030009000120 catalytic triad [active] 1030009000121 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009000122 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 1030009000123 active site 1030009000124 motif I; other site 1030009000125 motif II; other site 1030009000126 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 1030009000127 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009000128 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009000129 DNA binding site [nucleotide binding] 1030009000130 domain linker motif; other site 1030009000131 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 1030009000132 dimerization interface [polypeptide binding]; other site 1030009000133 putative ligand binding site [chemical binding]; other site 1030009000134 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009000135 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009000136 nucleotide binding site [chemical binding]; other site 1030009000137 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 1030009000138 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 1030009000139 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009000140 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009000141 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1030009000142 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 1030009000143 dimer interface [polypeptide binding]; other site 1030009000144 active site 1030009000145 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 1030009000146 dimer interface [polypeptide binding]; other site 1030009000147 active site 1030009000148 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1030009000149 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1030009000150 arginine deiminase; Provisional; Region: PRK01388 1030009000151 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1030009000152 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1030009000153 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 1030009000154 dimer interface [polypeptide binding]; other site 1030009000155 ssDNA binding site [nucleotide binding]; other site 1030009000156 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009000157 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1030009000158 Predicted membrane protein [Function unknown]; Region: COG3212 1030009000159 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1030009000160 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1030009000161 putative accessory gene regulator protein; Provisional; Region: PRK01100 1030009000162 Staphylococcal AgrD protein; Region: AgrD; cl05477 1030009000163 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1030009000164 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 1030009000165 ATP binding site [chemical binding]; other site 1030009000166 Mg2+ binding site [ion binding]; other site 1030009000167 G-X-G motif; other site 1030009000168 Response regulator receiver domain; Region: Response_reg; pfam00072 1030009000169 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 1030009000170 active site 1030009000171 phosphorylation site [posttranslational modification] 1030009000172 intermolecular recognition site; other site 1030009000173 dimerization interface [polypeptide binding]; other site 1030009000174 LytTr DNA-binding domain; Region: LytTR; pfam04397 1030009000175 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1030009000176 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1030009000177 DHH family; Region: DHH; pfam01368 1030009000178 DHHA1 domain; Region: DHHA1; pfam02272 1030009000179 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1030009000180 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1030009000181 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1030009000182 replicative DNA helicase; Provisional; Region: PRK05748 1030009000183 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1030009000184 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 1030009000185 Walker A motif; other site 1030009000186 ATP binding site [chemical binding]; other site 1030009000187 Walker B motif; other site 1030009000188 DNA binding loops [nucleotide binding] 1030009000189 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1030009000190 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 1030009000191 GDP-binding site [chemical binding]; other site 1030009000192 ACT binding site; other site 1030009000193 IMP binding site; other site 1030009000194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 1030009000195 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1030009000196 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 1030009000197 Predicted membrane protein [Function unknown]; Region: COG1511 1030009000198 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 1030009000199 Uncharacterized small protein [Function unknown]; Region: COG5417 1030009000200 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 1030009000201 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 1030009000202 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 1030009000203 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 1030009000204 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1030009000205 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1030009000206 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1030009000207 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 1030009000208 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1030009000209 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 1030009000210 tetramer interface [polypeptide binding]; other site 1030009000211 active site 1030009000212 Mg2+/Mn2+ binding site [ion binding]; other site 1030009000213 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1030009000214 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1030009000215 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1030009000216 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 1030009000217 DNA binding site [nucleotide binding] 1030009000218 active site 1030009000219 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1030009000220 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1030009000221 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1030009000222 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1030009000223 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 1030009000224 putative ligand binding site [chemical binding]; other site 1030009000225 putative NAD binding site [chemical binding]; other site 1030009000226 catalytic site [active] 1030009000227 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1030009000228 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 1030009000229 Int/Topo IB signature motif; other site 1030009000230 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 1030009000231 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 1030009000232 non-specific DNA binding site [nucleotide binding]; other site 1030009000233 salt bridge; other site 1030009000234 sequence-specific DNA binding site [nucleotide binding]; other site 1030009000235 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 1030009000236 non-specific DNA binding site [nucleotide binding]; other site 1030009000237 salt bridge; other site 1030009000238 sequence-specific DNA binding site [nucleotide binding]; other site 1030009000239 Helix-turn-helix domain; Region: HTH_17; pfam12728 1030009000240 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 1030009000241 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 1030009000242 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1030009000243 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 1030009000244 active site 1030009000245 DNA binding site [nucleotide binding] 1030009000246 catalytic site [active] 1030009000247 YopX protein; Region: YopX; pfam09643 1030009000248 Virulence-associated protein E; Region: VirE; pfam05272 1030009000249 VRR-NUC domain; Region: VRR_NUC; pfam08774 1030009000250 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1030009000251 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 1030009000252 ATP binding site [chemical binding]; other site 1030009000253 putative Mg++ binding site [ion binding]; other site 1030009000254 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 1030009000255 nucleotide binding region [chemical binding]; other site 1030009000256 ATP-binding site [chemical binding]; other site 1030009000257 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 1030009000258 putative metal binding site [ion binding]; other site 1030009000259 HTH domain; Region: HTH_11; cl17392 1030009000260 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1030009000261 Phage portal protein; Region: Phage_portal; pfam04860 1030009000262 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1030009000263 oligomer interface [polypeptide binding]; other site 1030009000264 active site residues [active] 1030009000265 Phage capsid family; Region: Phage_capsid; pfam05065 1030009000266 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1030009000267 Bacteriophage holin; Region: Phage_holin_1; pfam04531 1030009000268 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 1030009000269 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 1030009000270 amidase catalytic site [active] 1030009000271 Zn binding residues [ion binding]; other site 1030009000272 substrate binding site [chemical binding]; other site 1030009000273 TM2 domain; Region: TM2; pfam05154 1030009000274 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009000275 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009000276 DNA binding residues [nucleotide binding] 1030009000277 putative dimer interface [polypeptide binding]; other site 1030009000278 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 1030009000279 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009000280 active site 1030009000281 catalytic tetrad [active] 1030009000282 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009000283 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 1030009000284 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1030009000285 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1030009000286 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 1030009000287 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 1030009000288 Walker A motif; other site 1030009000289 ATP binding site [chemical binding]; other site 1030009000290 Walker B motif; other site 1030009000291 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1030009000292 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1030009000293 core domain interface [polypeptide binding]; other site 1030009000294 delta subunit interface [polypeptide binding]; other site 1030009000295 epsilon subunit interface [polypeptide binding]; other site 1030009000296 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 1030009000297 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1030009000298 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 1030009000299 alpha subunit interaction interface [polypeptide binding]; other site 1030009000300 Walker A motif; other site 1030009000301 ATP binding site [chemical binding]; other site 1030009000302 Walker B motif; other site 1030009000303 inhibitor binding site; inhibition site 1030009000304 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1030009000305 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1030009000306 gamma subunit interface [polypeptide binding]; other site 1030009000307 epsilon subunit interface [polypeptide binding]; other site 1030009000308 LBP interface [polypeptide binding]; other site 1030009000309 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009000310 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009000311 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009000312 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009000313 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009000314 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009000315 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009000316 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009000317 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1030009000318 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 1030009000319 active pocket/dimerization site; other site 1030009000320 active site 1030009000321 phosphorylation site [posttranslational modification] 1030009000322 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 1030009000323 active site 1030009000324 phosphorylation site [posttranslational modification] 1030009000325 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1030009000326 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1030009000327 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1030009000328 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 1030009000329 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1030009000330 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1030009000331 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 1030009000332 dimerization interface [polypeptide binding]; other site 1030009000333 putative DNA binding site [nucleotide binding]; other site 1030009000334 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1030009000335 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 1030009000336 dimer interface [polypeptide binding]; other site 1030009000337 FMN binding site [chemical binding]; other site 1030009000338 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 1030009000339 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 1030009000340 active site 1030009000341 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1030009000342 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 1030009000343 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1030009000344 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1030009000345 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009000346 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009000347 nucleotide binding site [chemical binding]; other site 1030009000348 butyrate kinase; Region: butyr_kinase; TIGR02707 1030009000349 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009000350 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009000351 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1030009000352 Walker A/P-loop; other site 1030009000353 ATP binding site [chemical binding]; other site 1030009000354 Q-loop/lid; other site 1030009000355 ABC transporter signature motif; other site 1030009000356 Walker B; other site 1030009000357 D-loop; other site 1030009000358 H-loop/switch region; other site 1030009000359 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009000360 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009000361 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1030009000362 Walker A/P-loop; other site 1030009000363 ATP binding site [chemical binding]; other site 1030009000364 Q-loop/lid; other site 1030009000365 ABC transporter signature motif; other site 1030009000366 Walker B; other site 1030009000367 D-loop; other site 1030009000368 H-loop/switch region; other site 1030009000369 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1030009000370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009000371 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1030009000372 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009000373 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 1030009000374 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1030009000375 substrate binding pocket [chemical binding]; other site 1030009000376 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1030009000377 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 1030009000378 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009000379 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 1030009000380 ligand binding site [chemical binding]; other site 1030009000381 flexible hinge region; other site 1030009000382 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1030009000383 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1030009000384 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 1030009000385 non-specific DNA binding site [nucleotide binding]; other site 1030009000386 salt bridge; other site 1030009000387 sequence-specific DNA binding site [nucleotide binding]; other site 1030009000388 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1030009000389 Phage-related holin (Lysis protein) [General function prediction only]; Region: COG4824 1030009000390 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1030009000391 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 1030009000392 active site 1030009000393 metal binding site [ion binding]; metal-binding site 1030009000394 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1030009000395 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 1030009000396 putative active site [active] 1030009000397 putative metal binding site [ion binding]; other site 1030009000398 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1030009000399 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 1030009000400 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 1030009000401 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 1030009000402 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 1030009000403 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 1030009000404 active site 1030009000405 Uncharacterized conserved protein [Function unknown]; Region: COG3592 1030009000406 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009000407 Coenzyme A binding pocket [chemical binding]; other site 1030009000408 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1030009000409 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 1030009000410 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1030009000411 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 1030009000412 dimer interface [polypeptide binding]; other site 1030009000413 conserved gate region; other site 1030009000414 putative PBP binding loops; other site 1030009000415 ABC-ATPase subunit interface; other site 1030009000416 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1030009000417 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1030009000418 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 1030009000419 dimer interface [polypeptide binding]; other site 1030009000420 conserved gate region; other site 1030009000421 putative PBP binding loops; other site 1030009000422 ABC-ATPase subunit interface; other site 1030009000423 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 1030009000424 LXG domain of WXG superfamily; Region: LXG; pfam04740 1030009000425 ADP-ribosyl cyclase, also known as cyclic ADP-ribose hydrolase or CD38; Region: Rib_hydrolase; cl08346 1030009000426 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1030009000427 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1030009000428 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1030009000429 peptide binding site [polypeptide binding]; other site 1030009000430 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1030009000431 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 1030009000432 metal binding site [ion binding]; metal-binding site 1030009000433 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1030009000434 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1030009000435 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; cl00462 1030009000436 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1030009000437 ABC-ATPase subunit interface; other site 1030009000438 dimer interface [polypeptide binding]; other site 1030009000439 putative PBP binding regions; other site 1030009000440 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009000441 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009000442 ligand binding site [chemical binding]; other site 1030009000443 flexible hinge region; other site 1030009000444 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1030009000445 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1030009000446 DEAD_2; Region: DEAD_2; pfam06733 1030009000447 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1030009000448 sugar phosphate phosphatase; Provisional; Region: PRK10513 1030009000449 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 1030009000450 active site 1030009000451 motif I; other site 1030009000452 motif II; other site 1030009000453 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 1030009000454 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1030009000455 Collagen binding domain; Region: Collagen_bind; pfam05737 1030009000456 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009000457 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009000458 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009000459 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1030009000460 Collagen binding domain; Region: Collagen_bind; pfam05737 1030009000461 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009000462 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009000463 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 1030009000464 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1030009000465 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1030009000466 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1030009000467 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467 1030009000468 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1030009000469 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 1030009000470 S-adenosylmethionine binding site [chemical binding]; other site 1030009000471 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1030009000472 GIY-YIG motif/motif A; other site 1030009000473 putative active site [active] 1030009000474 putative metal binding site [ion binding]; other site 1030009000475 Predicted methyltransferases [General function prediction only]; Region: COG0313 1030009000476 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1030009000477 putative SAM binding site [chemical binding]; other site 1030009000478 putative homodimer interface [polypeptide binding]; other site 1030009000479 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1030009000480 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1030009000481 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1030009000482 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1030009000483 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1030009000484 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1030009000485 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009000486 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1030009000487 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1030009000488 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1030009000489 active site 1030009000490 HIGH motif; other site 1030009000491 KMSKS motif; other site 1030009000492 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1030009000493 tRNA binding surface [nucleotide binding]; other site 1030009000494 anticodon binding site; other site 1030009000495 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 1030009000496 dimer interface [polypeptide binding]; other site 1030009000497 putative tRNA-binding site [nucleotide binding]; other site 1030009000498 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1030009000499 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009000500 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009000501 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1030009000502 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1030009000503 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 1030009000504 dimer interface [polypeptide binding]; other site 1030009000505 conserved gate region; other site 1030009000506 putative PBP binding loops; other site 1030009000507 ABC-ATPase subunit interface; other site 1030009000508 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1030009000509 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 1030009000510 dimer interface [polypeptide binding]; other site 1030009000511 conserved gate region; other site 1030009000512 putative PBP binding loops; other site 1030009000513 ABC-ATPase subunit interface; other site 1030009000514 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1030009000515 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1030009000516 alpha-glucosidase; Provisional; Region: PRK10426 1030009000517 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1030009000518 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 1030009000519 active site 1030009000520 catalytic site [active] 1030009000521 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1030009000522 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1030009000523 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 1030009000524 trimer interface [polypeptide binding]; other site 1030009000525 active site 1030009000526 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 1030009000527 catalytic site [active] 1030009000528 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1030009000529 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 1030009000530 Ca binding site [ion binding]; other site 1030009000531 active site 1030009000532 catalytic site [active] 1030009000533 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1030009000534 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1030009000535 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1030009000536 active site 1030009000537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 1030009000538 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1030009000539 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1030009000540 G5 domain; Region: G5; pfam07501 1030009000541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1030009000542 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1030009000543 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 1030009000544 putative active site [active] 1030009000545 putative metal binding site [ion binding]; other site 1030009000546 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1030009000547 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1030009000548 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 1030009000549 S-adenosylmethionine binding site [chemical binding]; other site 1030009000550 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1030009000551 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1030009000552 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1030009000553 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 1030009000554 putative active site [active] 1030009000555 YdjC motif; other site 1030009000556 Mg binding site [ion binding]; other site 1030009000557 putative homodimer interface [polypeptide binding]; other site 1030009000558 pur operon repressor; Provisional; Region: PRK09213 1030009000559 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1030009000560 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009000561 active site 1030009000562 HlyD family secretion protein; Region: HlyD_3; pfam13437 1030009000563 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009000564 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009000565 Walker A/P-loop; other site 1030009000566 ATP binding site [chemical binding]; other site 1030009000567 Q-loop/lid; other site 1030009000568 ABC transporter signature motif; other site 1030009000569 Walker B; other site 1030009000570 D-loop; other site 1030009000571 H-loop/switch region; other site 1030009000572 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1030009000573 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1030009000574 FtsX-like permease family; Region: FtsX; pfam02687 1030009000575 regulatory protein SpoVG; Reviewed; Region: PRK13259 1030009000576 regulatory protein SpoVG; Reviewed; Region: PRK13259 1030009000577 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1030009000578 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1030009000579 Substrate binding site; other site 1030009000580 Mg++ binding site; other site 1030009000581 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 1030009000582 active site 1030009000583 substrate binding site [chemical binding]; other site 1030009000584 CoA binding site [chemical binding]; other site 1030009000585 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1030009000586 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1030009000587 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009000588 active site 1030009000589 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009000590 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009000591 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1030009000592 Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C; Region: PI-PLCc; cd00137 1030009000593 active site 1030009000594 catalytic site [active] 1030009000595 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 1030009000596 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1030009000597 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1030009000598 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1030009000599 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1030009000600 active site 1030009000601 Zn binding site [ion binding]; other site 1030009000602 ActA Protein; Region: ActA; pfam05058 1030009000603 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 1030009000604 Zn binding site [ion binding]; other site 1030009000605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 1030009000606 hypothetical protein; Provisional; Region: PRK01119 1030009000607 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1030009000608 A new structural DNA glycosylase; Region: AlkD_like; cl11434 1030009000609 active site 1030009000610 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1030009000611 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1030009000612 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009000613 NAD binding site [chemical binding]; other site 1030009000614 dimer interface [polypeptide binding]; other site 1030009000615 substrate binding site [chemical binding]; other site 1030009000616 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1030009000617 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1030009000618 5S rRNA interface [nucleotide binding]; other site 1030009000619 CTC domain interface [polypeptide binding]; other site 1030009000620 L16 interface [polypeptide binding]; other site 1030009000621 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1030009000622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009000623 Coenzyme A binding pocket [chemical binding]; other site 1030009000624 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 1030009000625 putative active site [active] 1030009000626 catalytic residue [active] 1030009000627 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1030009000628 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1030009000629 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 1030009000630 ATP binding site [chemical binding]; other site 1030009000631 putative Mg++ binding site [ion binding]; other site 1030009000632 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 1030009000633 nucleotide binding region [chemical binding]; other site 1030009000634 ATP-binding site [chemical binding]; other site 1030009000635 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1030009000636 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1030009000637 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1030009000638 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 1030009000639 RNA binding surface [nucleotide binding]; other site 1030009000640 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1030009000641 Septum formation initiator; Region: DivIC; pfam04977 1030009000642 hypothetical protein; Provisional; Region: PRK08582 1030009000643 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 1030009000644 RNA binding site [nucleotide binding]; other site 1030009000645 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1030009000646 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 1030009000647 Ligand Binding Site [chemical binding]; other site 1030009000648 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1030009000649 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1030009000650 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009000651 active site 1030009000652 FtsH Extracellular; Region: FtsH_ext; pfam06480 1030009000653 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1030009000654 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 1030009000655 Walker A motif; other site 1030009000656 ATP binding site [chemical binding]; other site 1030009000657 Walker B motif; other site 1030009000658 arginine finger; other site 1030009000659 Peptidase family M41; Region: Peptidase_M41; pfam01434 1030009000660 pantothenate kinase; Reviewed; Region: PRK13318 1030009000661 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1030009000662 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 1030009000663 dimerization interface [polypeptide binding]; other site 1030009000664 domain crossover interface; other site 1030009000665 redox-dependent activation switch; other site 1030009000666 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1030009000667 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 1030009000668 dimer interface [polypeptide binding]; other site 1030009000669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009000670 catalytic residue [active] 1030009000671 dihydropteroate synthase; Region: DHPS; TIGR01496 1030009000672 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 1030009000673 substrate binding pocket [chemical binding]; other site 1030009000674 dimer interface [polypeptide binding]; other site 1030009000675 inhibitor binding site; inhibition site 1030009000676 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 1030009000677 homooctamer interface [polypeptide binding]; other site 1030009000678 active site 1030009000679 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 1030009000680 catalytic center binding site [active] 1030009000681 ATP binding site [chemical binding]; other site 1030009000682 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1030009000683 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 1030009000684 FMN binding site [chemical binding]; other site 1030009000685 active site 1030009000686 catalytic residues [active] 1030009000687 substrate binding site [chemical binding]; other site 1030009000688 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1030009000689 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 1030009000690 dimer interface [polypeptide binding]; other site 1030009000691 putative anticodon binding site; other site 1030009000692 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 1030009000693 motif 1; other site 1030009000694 active site 1030009000695 motif 2; other site 1030009000696 motif 3; other site 1030009000697 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1030009000698 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1030009000699 UvrB/uvrC motif; Region: UVR; pfam02151 1030009000700 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1030009000701 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1030009000702 ADP binding site [chemical binding]; other site 1030009000703 phosphagen binding site; other site 1030009000704 substrate specificity loop; other site 1030009000705 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1030009000706 Clp amino terminal domain; Region: Clp_N; pfam02861 1030009000707 Clp amino terminal domain; Region: Clp_N; pfam02861 1030009000708 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 1030009000709 Walker A motif; other site 1030009000710 ATP binding site [chemical binding]; other site 1030009000711 Walker B motif; other site 1030009000712 arginine finger; other site 1030009000713 UvrB/uvrC motif; Region: UVR; pfam02151 1030009000714 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 1030009000715 Walker A motif; other site 1030009000716 ATP binding site [chemical binding]; other site 1030009000717 Walker B motif; other site 1030009000718 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1030009000719 DNA repair protein RadA; Provisional; Region: PRK11823 1030009000720 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 1030009000721 Walker A motif/ATP binding site; other site 1030009000722 ATP binding site [chemical binding]; other site 1030009000723 Walker B motif; other site 1030009000724 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1030009000725 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1030009000726 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1030009000727 putative active site [active] 1030009000728 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1030009000729 substrate binding site; other site 1030009000730 dimer interface; other site 1030009000731 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 1030009000732 homotrimer interaction site [polypeptide binding]; other site 1030009000733 zinc binding site [ion binding]; other site 1030009000734 CDP-binding sites; other site 1030009000735 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1030009000736 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1030009000737 HIGH motif; other site 1030009000738 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1030009000739 active site 1030009000740 KMSKS motif; other site 1030009000741 serine O-acetyltransferase; Region: cysE; TIGR01172 1030009000742 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 1030009000743 trimer interface [polypeptide binding]; other site 1030009000744 active site 1030009000745 substrate binding site [chemical binding]; other site 1030009000746 CoA binding site [chemical binding]; other site 1030009000747 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1030009000748 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1030009000749 active site 1030009000750 HIGH motif; other site 1030009000751 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1030009000752 KMSKS motif; other site 1030009000753 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1030009000754 tRNA binding surface [nucleotide binding]; other site 1030009000755 anticodon binding site; other site 1030009000756 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 1030009000757 active site 1030009000758 metal binding site [ion binding]; metal-binding site 1030009000759 dimerization interface [polypeptide binding]; other site 1030009000760 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1030009000761 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1030009000762 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1030009000763 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 1030009000764 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1030009000765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1030009000766 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1030009000767 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1030009000768 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1030009000769 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1030009000770 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1030009000771 putative homodimer interface [polypeptide binding]; other site 1030009000772 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1030009000773 heterodimer interface [polypeptide binding]; other site 1030009000774 homodimer interface [polypeptide binding]; other site 1030009000775 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1030009000776 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 1030009000777 23S rRNA interface [nucleotide binding]; other site 1030009000778 L7/L12 interface [polypeptide binding]; other site 1030009000779 putative thiostrepton binding site; other site 1030009000780 L25 interface [polypeptide binding]; other site 1030009000781 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 1030009000782 mRNA/rRNA interface [nucleotide binding]; other site 1030009000783 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 1030009000784 23S rRNA interface [nucleotide binding]; other site 1030009000785 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1030009000786 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 1030009000787 core dimer interface [polypeptide binding]; other site 1030009000788 peripheral dimer interface [polypeptide binding]; other site 1030009000789 L10 interface [polypeptide binding]; other site 1030009000790 L11 interface [polypeptide binding]; other site 1030009000791 putative EF-Tu interaction site [polypeptide binding]; other site 1030009000792 putative EF-G interaction site [polypeptide binding]; other site 1030009000793 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1030009000794 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1030009000795 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1030009000796 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 1030009000797 Protein of unknown function (DUF1307); Region: DUF1307; pfam06998 1030009000798 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1030009000799 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 1030009000800 S-adenosylmethionine binding site [chemical binding]; other site 1030009000801 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 1030009000802 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1030009000803 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 1030009000804 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009000805 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009000806 DNA binding site [nucleotide binding] 1030009000807 domain linker motif; other site 1030009000808 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 1030009000809 putative dimerization interface [polypeptide binding]; other site 1030009000810 putative ligand binding site [chemical binding]; other site 1030009000811 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1030009000812 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1030009000813 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1030009000814 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 1030009000815 dimer interface [polypeptide binding]; other site 1030009000816 conserved gate region; other site 1030009000817 putative PBP binding loops; other site 1030009000818 ABC-ATPase subunit interface; other site 1030009000819 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1030009000820 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 1030009000821 dimer interface [polypeptide binding]; other site 1030009000822 conserved gate region; other site 1030009000823 putative PBP binding loops; other site 1030009000824 ABC-ATPase subunit interface; other site 1030009000825 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1030009000826 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 1030009000827 Ca binding site [ion binding]; other site 1030009000828 active site 1030009000829 catalytic site [active] 1030009000830 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 1030009000831 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 1030009000832 active site 1030009000833 homodimer interface [polypeptide binding]; other site 1030009000834 catalytic site [active] 1030009000835 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1030009000836 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 1030009000837 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 1030009000838 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1030009000839 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 1030009000840 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 1030009000841 RPB10 interaction site [polypeptide binding]; other site 1030009000842 RPB1 interaction site [polypeptide binding]; other site 1030009000843 RPB11 interaction site [polypeptide binding]; other site 1030009000844 RPB3 interaction site [polypeptide binding]; other site 1030009000845 RPB12 interaction site [polypeptide binding]; other site 1030009000846 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1030009000847 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1030009000848 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1030009000849 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1030009000850 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1030009000851 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1030009000852 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1030009000853 G-loop; other site 1030009000854 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1030009000855 DNA binding site [nucleotide binding] 1030009000856 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1030009000857 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1030009000858 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 1030009000859 active site 1030009000860 motif I; other site 1030009000861 motif II; other site 1030009000862 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009000863 beta-galactosidase; Region: BGL; TIGR03356 1030009000864 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 1030009000865 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1030009000866 metal binding site [ion binding]; metal-binding site 1030009000867 dimer interface [polypeptide binding]; other site 1030009000868 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1030009000869 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 1030009000870 putative Zn2+ binding site [ion binding]; other site 1030009000871 putative DNA binding site [nucleotide binding]; other site 1030009000872 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1030009000873 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009000874 Zn binding site [ion binding]; other site 1030009000875 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1030009000876 Zn binding site [ion binding]; other site 1030009000877 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 1030009000878 catalytic core [active] 1030009000879 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1030009000880 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1030009000881 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1030009000882 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 1030009000883 dimer interface [polypeptide binding]; other site 1030009000884 conserved gate region; other site 1030009000885 ABC-ATPase subunit interface; other site 1030009000886 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1030009000887 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 1030009000888 Leucine-rich repeats; other site 1030009000889 Substrate binding site [chemical binding]; other site 1030009000890 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 1030009000891 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009000892 beta-galactosidase; Region: BGL; TIGR03356 1030009000893 sugar phosphate phosphatase; Provisional; Region: PRK10513 1030009000894 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 1030009000895 active site 1030009000896 motif I; other site 1030009000897 motif II; other site 1030009000898 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1030009000899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009000900 Coenzyme A binding pocket [chemical binding]; other site 1030009000901 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009000902 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009000903 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1030009000904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1030009000905 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 1030009000906 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1030009000907 active site 1030009000908 motif I; other site 1030009000909 motif II; other site 1030009000910 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 1030009000911 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1030009000912 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009000913 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1030009000914 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1030009000915 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1030009000916 Walker A/P-loop; other site 1030009000917 ATP binding site [chemical binding]; other site 1030009000918 Q-loop/lid; other site 1030009000919 ABC transporter signature motif; other site 1030009000920 Walker B; other site 1030009000921 D-loop; other site 1030009000922 H-loop/switch region; other site 1030009000923 TOBE domain; Region: TOBE; pfam03459 1030009000924 ATP cone domain; Region: ATP-cone; pfam03477 1030009000925 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1030009000926 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1030009000927 effector binding site; other site 1030009000928 active site 1030009000929 Zn binding site [ion binding]; other site 1030009000930 glycine loop; other site 1030009000931 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1030009000932 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1030009000933 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1030009000934 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009000935 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009000936 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1030009000937 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 1030009000938 putative active site [active] 1030009000939 catalytic triad [active] 1030009000940 putative dimer interface [polypeptide binding]; other site 1030009000941 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 1030009000942 dimer interface [polypeptide binding]; other site 1030009000943 conserved gate region; other site 1030009000944 ABC-ATPase subunit interface; other site 1030009000945 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1030009000946 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1030009000947 Walker A/P-loop; other site 1030009000948 ATP binding site [chemical binding]; other site 1030009000949 Q-loop/lid; other site 1030009000950 ABC transporter signature motif; other site 1030009000951 Walker B; other site 1030009000952 D-loop; other site 1030009000953 H-loop/switch region; other site 1030009000954 NIL domain; Region: NIL; pfam09383 1030009000955 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1030009000956 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1030009000957 transaminase; Reviewed; Region: PRK08068 1030009000958 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 1030009000959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009000960 homodimer interface [polypeptide binding]; other site 1030009000961 catalytic residue [active] 1030009000962 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009000963 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 1030009000964 active site 1030009000965 phosphorylation site [posttranslational modification] 1030009000966 intermolecular recognition site; other site 1030009000967 dimerization interface [polypeptide binding]; other site 1030009000968 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 1030009000969 DNA binding site [nucleotide binding] 1030009000970 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1030009000971 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 1030009000972 dimerization interface [polypeptide binding]; other site 1030009000973 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 1030009000974 putative active site [active] 1030009000975 heme pocket [chemical binding]; other site 1030009000976 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 1030009000977 dimer interface [polypeptide binding]; other site 1030009000978 phosphorylation site [posttranslational modification] 1030009000979 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 1030009000980 ATP binding site [chemical binding]; other site 1030009000981 Mg2+ binding site [ion binding]; other site 1030009000982 G-X-G motif; other site 1030009000983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1030009000984 YycH protein; Region: YycH; pfam07435 1030009000985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4853 1030009000986 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1030009000987 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1030009000988 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1030009000989 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1030009000990 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 1030009000991 protein binding site [polypeptide binding]; other site 1030009000992 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1030009000993 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009000994 HTH domain; Region: HTH_11; pfam08279 1030009000995 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009000996 PRD domain; Region: PRD; pfam00874 1030009000997 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 1030009000998 active site 1030009000999 P-loop; other site 1030009001000 phosphorylation site [posttranslational modification] 1030009001001 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 1030009001002 active site 1030009001003 phosphorylation site [posttranslational modification] 1030009001004 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009001005 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009001006 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 1030009001007 active site 1030009001008 P-loop; other site 1030009001009 phosphorylation site [posttranslational modification] 1030009001010 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009001011 beta-galactosidase; Region: BGL; TIGR03356 1030009001012 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 1030009001013 methionine cluster; other site 1030009001014 active site 1030009001015 phosphorylation site [posttranslational modification] 1030009001016 metal binding site [ion binding]; metal-binding site 1030009001017 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1030009001018 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 1030009001019 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1030009001020 catalytic residue [active] 1030009001021 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 1030009001022 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 1030009001023 nucleophilic elbow; other site 1030009001024 catalytic triad; other site 1030009001025 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1030009001026 Protein of unknown function DUF262; Region: DUF262; pfam03235 1030009001027 Protein of unknown function DUF262; Region: DUF262; pfam03235 1030009001028 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1030009001029 NgoPII restriction endonuclease; Region: RE_NgoPII; pfam09521 1030009001030 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 1030009001031 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1030009001032 cofactor binding site; other site 1030009001033 DNA binding site [nucleotide binding] 1030009001034 substrate interaction site [chemical binding]; other site 1030009001035 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_1; cd10805 1030009001036 putative active site [active] 1030009001037 YdjC motif; other site 1030009001038 Mg binding site [ion binding]; other site 1030009001039 putative homodimer interface [polypeptide binding]; other site 1030009001040 Putative transcription activator [Transcription]; Region: TenA; COG0819 1030009001041 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 1030009001042 substrate binding site [chemical binding]; other site 1030009001043 multimerization interface [polypeptide binding]; other site 1030009001044 ATP binding site [chemical binding]; other site 1030009001045 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 1030009001046 dimer interface [polypeptide binding]; other site 1030009001047 substrate binding site [chemical binding]; other site 1030009001048 ATP binding site [chemical binding]; other site 1030009001049 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 1030009001050 thiamine phosphate binding site [chemical binding]; other site 1030009001051 active site 1030009001052 pyrophosphate binding site [ion binding]; other site 1030009001053 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009001054 beta-galactosidase; Region: BGL; TIGR03356 1030009001055 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 1030009001056 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 1030009001057 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 1030009001058 putative catalytic site [active] 1030009001059 putative metal binding site [ion binding]; other site 1030009001060 putative phosphate binding site [ion binding]; other site 1030009001061 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 1030009001062 non-specific DNA binding site [nucleotide binding]; other site 1030009001063 salt bridge; other site 1030009001064 sequence-specific DNA binding site [nucleotide binding]; other site 1030009001065 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1030009001066 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 1030009001067 non-specific DNA binding site [nucleotide binding]; other site 1030009001068 salt bridge; other site 1030009001069 sequence-specific DNA binding site [nucleotide binding]; other site 1030009001070 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1030009001071 Leucine rich repeat; Region: LRR_8; pfam13855 1030009001072 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001073 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001074 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001075 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001076 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001077 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001078 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001079 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001080 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001081 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001082 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001083 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001084 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001085 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001086 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001087 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001088 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009001089 Leucine rich repeat; Region: LRR_8; pfam13855 1030009001090 LRR adjacent; Region: LRR_adjacent; pfam08191 1030009001091 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001092 Protein of unknown function (DUF3130; Region: DUF3130; pfam11328 1030009001093 LXG domain of WXG superfamily; Region: LXG; pfam04740 1030009001094 Inorganic pyrophosphatase [Energy production and conversion]; Region: Ppa; COG0221 1030009001095 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1030009001096 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 1030009001097 TPP-binding site [chemical binding]; other site 1030009001098 dimer interface [polypeptide binding]; other site 1030009001099 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 1030009001100 PYR/PP interface [polypeptide binding]; other site 1030009001101 dimer interface [polypeptide binding]; other site 1030009001102 TPP binding site [chemical binding]; other site 1030009001103 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1030009001104 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1030009001105 active site 1030009001106 intersubunit interactions; other site 1030009001107 catalytic residue [active] 1030009001108 short chain dehydrogenase; Provisional; Region: PRK06841 1030009001109 classical (c) SDRs; Region: SDR_c; cd05233 1030009001110 NAD(P) binding site [chemical binding]; other site 1030009001111 active site 1030009001112 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1030009001113 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 1030009001114 substrate binding site [chemical binding]; other site 1030009001115 dimer interface [polypeptide binding]; other site 1030009001116 catalytic triad [active] 1030009001117 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1030009001118 DAK2 domain; Region: Dak2; cl03685 1030009001119 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1030009001120 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1030009001121 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 1030009001122 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1030009001123 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 1030009001124 putative DNA binding site [nucleotide binding]; other site 1030009001125 putative Zn2+ binding site [ion binding]; other site 1030009001126 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1030009001127 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009001128 Coenzyme A binding pocket [chemical binding]; other site 1030009001129 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 1030009001130 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1030009001131 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 1030009001132 Leucine-rich repeats; other site 1030009001133 LRR adjacent; Region: LRR_adjacent; pfam08191 1030009001134 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001135 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001136 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1030009001137 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1030009001138 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1030009001139 acyl-activating enzyme (AAE) consensus motif; other site 1030009001140 acyl-activating enzyme (AAE) consensus motif; other site 1030009001141 AMP binding site [chemical binding]; other site 1030009001142 active site 1030009001143 CoA binding site [chemical binding]; other site 1030009001144 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 1030009001145 L-aspartate oxidase; Provisional; Region: PRK06175 1030009001146 putative oxidoreductase; Provisional; Region: PRK10206 1030009001147 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009001148 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1030009001149 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 1030009001150 active site 1030009001151 phosphorylation site [posttranslational modification] 1030009001152 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1030009001153 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 1030009001154 active site 1030009001155 P-loop; other site 1030009001156 phosphorylation site [posttranslational modification] 1030009001157 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1030009001158 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 1030009001159 intersubunit interface [polypeptide binding]; other site 1030009001160 active site 1030009001161 zinc binding site [ion binding]; other site 1030009001162 Na+ binding site [ion binding]; other site 1030009001163 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1030009001164 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1030009001165 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1030009001166 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1030009001167 conserved cys residue [active] 1030009001168 Predicted transcriptional regulator [Transcription]; Region: COG2378 1030009001169 HTH domain; Region: HTH_11; pfam08279 1030009001170 WYL domain; Region: WYL; pfam13280 1030009001171 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 1030009001172 nudix motif; other site 1030009001173 hypothetical protein; Provisional; Region: PRK12378 1030009001174 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1030009001175 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1030009001176 PhnA protein; Region: PhnA; pfam03831 1030009001177 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009001178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009001179 DNA-binding site [nucleotide binding]; DNA binding site 1030009001180 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1030009001181 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009001182 beta-galactosidase; Region: BGL; TIGR03356 1030009001183 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009001184 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1030009001185 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 1030009001186 active site 1030009001187 P-loop; other site 1030009001188 phosphorylation site [posttranslational modification] 1030009001189 Predicted transcriptional regulator [Transcription]; Region: COG2378 1030009001190 HTH domain; Region: HTH_11; pfam08279 1030009001191 WYL domain; Region: WYL; pfam13280 1030009001192 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 1030009001193 LXG domain of WXG superfamily; Region: LXG; pfam04740 1030009001194 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1030009001195 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1030009001196 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1030009001197 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1030009001198 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1030009001199 tetrameric interface [polypeptide binding]; other site 1030009001200 NAD binding site [chemical binding]; other site 1030009001201 catalytic residues [active] 1030009001202 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1030009001203 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1030009001204 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 1030009001205 substrate binding site [chemical binding]; other site 1030009001206 ATP binding site [chemical binding]; other site 1030009001207 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1030009001208 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1030009001209 PYR/PP interface [polypeptide binding]; other site 1030009001210 dimer interface [polypeptide binding]; other site 1030009001211 TPP binding site [chemical binding]; other site 1030009001212 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1030009001213 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 1030009001214 TPP-binding site; other site 1030009001215 Uncharacterized conserved protein [Function unknown]; Region: COG5646 1030009001216 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1030009001217 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1030009001218 ligand binding site [chemical binding]; other site 1030009001219 active site 1030009001220 UGI interface [polypeptide binding]; other site 1030009001221 catalytic site [active] 1030009001222 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1030009001223 hypothetical protein; Provisional; Region: PRK13665 1030009001224 Bacterial SH3 domain; Region: SH3_3; cl17532 1030009001225 NlpC/P60 family; Region: NLPC_P60; pfam00877 1030009001226 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1030009001227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009001228 Coenzyme A binding pocket [chemical binding]; other site 1030009001229 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1030009001230 pyrroline-5-carboxylate reductase; Region: PLN02688 1030009001231 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1030009001232 putative hydrophobic ligand binding site [chemical binding]; other site 1030009001233 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 1030009001234 active site 1030009001235 phosphorylation site [posttranslational modification] 1030009001236 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 1030009001237 active site 1030009001238 P-loop; other site 1030009001239 phosphorylation site [posttranslational modification] 1030009001240 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1030009001241 alpha-mannosidase; Provisional; Region: PRK09819 1030009001242 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 1030009001243 active site 1030009001244 metal binding site [ion binding]; metal-binding site 1030009001245 catalytic site [active] 1030009001246 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1030009001247 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009001248 HTH domain; Region: HTH_11; pfam08279 1030009001249 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009001250 PRD domain; Region: PRD; pfam00874 1030009001251 PRD domain; Region: PRD; pfam00874 1030009001252 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 1030009001253 active site 1030009001254 P-loop; other site 1030009001255 phosphorylation site [posttranslational modification] 1030009001256 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 1030009001257 active site 1030009001258 phosphorylation site [posttranslational modification] 1030009001259 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1030009001260 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 1030009001261 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009001262 putative metal binding site [ion binding]; other site 1030009001263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 1030009001264 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1030009001265 trimer interface [polypeptide binding]; other site 1030009001266 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1030009001267 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1030009001268 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1030009001269 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1030009001270 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1030009001271 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 1030009001272 NodB motif; other site 1030009001273 active site 1030009001274 catalytic site [active] 1030009001275 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 1030009001276 non-specific DNA binding site [nucleotide binding]; other site 1030009001277 salt bridge; other site 1030009001278 sequence-specific DNA binding site [nucleotide binding]; other site 1030009001279 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 1030009001280 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1030009001281 active site 1030009001282 motif I; other site 1030009001283 motif II; other site 1030009001284 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 1030009001285 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1030009001286 lineage-specific thermal regulator protein; Provisional; Region: lstR; PRK09416 1030009001287 Predicted transcriptional regulators [Transcription]; Region: COG1695 1030009001288 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 1030009001289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1030009001290 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 1030009001291 DNA binding residues [nucleotide binding] 1030009001292 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1030009001293 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009001294 HTH domain; Region: HTH_11; pfam08279 1030009001295 PRD domain; Region: PRD; pfam00874 1030009001296 PRD domain; Region: PRD; pfam00874 1030009001297 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 1030009001298 active site 1030009001299 P-loop; other site 1030009001300 phosphorylation site [posttranslational modification] 1030009001301 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 1030009001302 active site 1030009001303 phosphorylation site [posttranslational modification] 1030009001304 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 1030009001305 active site 1030009001306 phosphorylation site [posttranslational modification] 1030009001307 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 1030009001308 active site 1030009001309 P-loop; other site 1030009001310 phosphorylation site [posttranslational modification] 1030009001311 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1030009001312 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1030009001313 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 1030009001314 active site 1030009001315 metal binding site [ion binding]; metal-binding site 1030009001316 catalytic site [active] 1030009001317 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 1030009001318 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 1030009001319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1030009001320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1030009001321 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 1030009001322 dimerization interface [polypeptide binding]; other site 1030009001323 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 1030009001324 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1030009001325 active site 1030009001326 substrate binding site [chemical binding]; other site 1030009001327 trimer interface [polypeptide binding]; other site 1030009001328 CoA binding site [chemical binding]; other site 1030009001329 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1030009001330 classical (c) SDRs; Region: SDR_c; cd05233 1030009001331 NAD(P) binding site [chemical binding]; other site 1030009001332 active site 1030009001333 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1030009001334 RHS Repeat; Region: RHS_repeat; pfam05593 1030009001335 RHS Repeat; Region: RHS_repeat; cl11982 1030009001336 RHS Repeat; Region: RHS_repeat; pfam05593 1030009001337 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1030009001338 RHS Repeat; Region: RHS_repeat; pfam05593 1030009001339 RHS Repeat; Region: RHS_repeat; pfam05593 1030009001340 RHS Repeat; Region: RHS_repeat; pfam05593 1030009001341 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1030009001342 HEAT repeats; Region: HEAT_2; pfam13646 1030009001343 HEAT repeats; Region: HEAT_2; pfam13646 1030009001344 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 1030009001345 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1030009001346 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 1030009001347 Substrate binding site [chemical binding]; other site 1030009001348 LRR adjacent; Region: LRR_adjacent; pfam08191 1030009001349 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001350 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001351 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001352 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1030009001353 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 1030009001354 Leucine rich repeat; Region: LRR_8; pfam13855 1030009001355 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 1030009001356 Leucine rich repeat; Region: LRR_8; pfam13855 1030009001357 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001358 LRR adjacent; Region: LRR_adjacent; pfam08191 1030009001359 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001360 SH3-like domain; Region: SH3_8; pfam13457 1030009001361 Predicted transcriptional regulator [Transcription]; Region: COG1959 1030009001362 Transcriptional regulator; Region: Rrf2; pfam02082 1030009001363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1030009001364 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1030009001365 NAD(P) binding site [chemical binding]; other site 1030009001366 active site 1030009001367 nickel responsive regulator; Provisional; Region: PRK02967 1030009001368 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 1030009001369 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 1030009001370 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1030009001371 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1030009001372 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1030009001373 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1030009001374 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1030009001375 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 1030009001376 Predicted membrane protein [Function unknown]; Region: COG3619 1030009001377 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1030009001378 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1030009001379 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1030009001380 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1030009001381 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1030009001382 Protein of unknown function DUF58; Region: DUF58; pfam01882 1030009001383 MoxR-like ATPases [General function prediction only]; Region: COG0714 1030009001384 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 1030009001385 Walker A motif; other site 1030009001386 ATP binding site [chemical binding]; other site 1030009001387 Walker B motif; other site 1030009001388 arginine finger; other site 1030009001389 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1030009001390 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1030009001391 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1030009001392 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1030009001393 Na binding site [ion binding]; other site 1030009001394 Uncharacterized conserved protein [Function unknown]; Region: COG3535 1030009001395 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1030009001396 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009001397 nucleotide binding site [chemical binding]; other site 1030009001398 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1030009001399 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009001400 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1030009001401 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001402 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001403 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1030009001404 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001405 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001406 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001407 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1030009001408 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001409 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001410 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1030009001411 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009001412 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009001413 Zn2+ binding site [ion binding]; other site 1030009001414 Mg2+ binding site [ion binding]; other site 1030009001415 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1030009001416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009001417 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 1030009001418 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1030009001419 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 1030009001420 FeS/SAM binding site; other site 1030009001421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1030009001422 heme-degrading monooxygenase IsdG; Provisional; Region: PRK13316 1030009001423 LXG domain of WXG superfamily; Region: LXG; pfam04740 1030009001424 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 1030009001425 putative FMN binding site [chemical binding]; other site 1030009001426 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1030009001427 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1030009001428 nudix motif; other site 1030009001429 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1030009001430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1030009001431 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 1030009001432 putative dimerization interface [polypeptide binding]; other site 1030009001433 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1030009001434 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 1030009001435 active site 1030009001436 FMN binding site [chemical binding]; other site 1030009001437 substrate binding site [chemical binding]; other site 1030009001438 putative catalytic residue [active] 1030009001439 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1030009001440 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009001441 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009001442 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1030009001443 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1030009001444 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1030009001445 shikimate binding site; other site 1030009001446 NAD(P) binding site [chemical binding]; other site 1030009001447 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1030009001448 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1030009001449 active site 1030009001450 catalytic residue [active] 1030009001451 dimer interface [polypeptide binding]; other site 1030009001452 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 1030009001453 active site 1030009001454 catalytic triad [active] 1030009001455 oxyanion hole [active] 1030009001456 EamA-like transporter family; Region: EamA; pfam00892 1030009001457 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1030009001458 EamA-like transporter family; Region: EamA; pfam00892 1030009001459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 1030009001460 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1030009001461 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1030009001462 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 1030009001463 substrate binding site [chemical binding]; other site 1030009001464 hexamer interface [polypeptide binding]; other site 1030009001465 metal binding site [ion binding]; metal-binding site 1030009001466 Transaldolase [Carbohydrate transport and metabolism]; Region: MipB; COG0176 1030009001467 catalytic residue [active] 1030009001468 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009001469 PRD domain; Region: PRD; pfam00874 1030009001470 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 1030009001471 active site 1030009001472 P-loop; other site 1030009001473 phosphorylation site [posttranslational modification] 1030009001474 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 1030009001475 active site 1030009001476 phosphorylation site [posttranslational modification] 1030009001477 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 1030009001478 putative active site [active] 1030009001479 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 1030009001480 active site 1030009001481 phosphorylation site [posttranslational modification] 1030009001482 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1030009001483 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 1030009001484 substrate binding site [chemical binding]; other site 1030009001485 hexamer interface [polypeptide binding]; other site 1030009001486 metal binding site [ion binding]; metal-binding site 1030009001487 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1030009001488 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1030009001489 putative NAD(P) binding site [chemical binding]; other site 1030009001490 catalytic Zn binding site [ion binding]; other site 1030009001491 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 1030009001492 active site 1030009001493 P-loop; other site 1030009001494 phosphorylation site [posttranslational modification] 1030009001495 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1030009001496 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1030009001497 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1030009001498 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1030009001499 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009001500 active site 1030009001501 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cl17349 1030009001502 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1030009001503 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1030009001504 catalytic triad [active] 1030009001505 conserved hypothetical protein; Region: lin0512_fam; TIGR02058 1030009001506 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1030009001507 MarR family; Region: MarR_2; pfam12802 1030009001508 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001509 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001510 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009001511 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 1030009001512 Ligand Binding Site [chemical binding]; other site 1030009001513 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 1030009001514 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1030009001515 putative active site [active] 1030009001516 putative metal binding site [ion binding]; other site 1030009001517 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 1030009001518 catalytic core [active] 1030009001519 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 1030009001520 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 1030009001521 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cd09754 1030009001522 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl09909 1030009001523 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 1030009001524 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 1030009001525 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 1030009001526 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 1030009001527 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1030009001528 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 1030009001529 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1030009001530 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1030009001531 Predicted membrane protein [Function unknown]; Region: COG3759 1030009001532 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 1030009001533 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009001534 putative substrate translocation pore; other site 1030009001535 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 1030009001536 non-specific DNA interactions [nucleotide binding]; other site 1030009001537 DNA binding site [nucleotide binding] 1030009001538 sequence specific DNA binding site [nucleotide binding]; other site 1030009001539 putative cAMP binding site [chemical binding]; other site 1030009001540 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009001541 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1030009001542 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1030009001543 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1030009001544 NAD binding site [chemical binding]; other site 1030009001545 sugar binding site [chemical binding]; other site 1030009001546 divalent metal binding site [ion binding]; other site 1030009001547 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009001548 dimer interface [polypeptide binding]; other site 1030009001549 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1030009001550 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1030009001551 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 1030009001552 putative active site [active] 1030009001553 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1030009001554 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1030009001555 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1030009001556 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 1030009001557 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1030009001558 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1030009001559 DNA binding residues [nucleotide binding] 1030009001560 dimer interface [polypeptide binding]; other site 1030009001561 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1030009001562 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1030009001563 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1030009001564 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1030009001565 DXD motif; other site 1030009001566 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1030009001567 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1030009001568 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1030009001569 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1030009001570 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 1030009001571 S-adenosylmethionine binding site [chemical binding]; other site 1030009001572 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1030009001573 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1030009001574 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009001575 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009001576 DNA binding site [nucleotide binding] 1030009001577 domain linker motif; other site 1030009001578 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 1030009001579 putative dimerization interface [polypeptide binding]; other site 1030009001580 putative ligand binding site [chemical binding]; other site 1030009001581 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1030009001582 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1030009001583 NAD binding site [chemical binding]; other site 1030009001584 sugar binding site [chemical binding]; other site 1030009001585 divalent metal binding site [ion binding]; other site 1030009001586 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009001587 dimer interface [polypeptide binding]; other site 1030009001588 allantoate amidohydrolase; Reviewed; Region: PRK09290 1030009001589 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1030009001590 active site 1030009001591 metal binding site [ion binding]; metal-binding site 1030009001592 dimer interface [polypeptide binding]; other site 1030009001593 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1030009001594 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 1030009001595 metal binding site [ion binding]; metal-binding site 1030009001596 putative dimer interface [polypeptide binding]; other site 1030009001597 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1030009001598 Beta-lactamase; Region: Beta-lactamase; pfam00144 1030009001599 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1030009001600 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 1030009001601 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1030009001602 intersubunit interface [polypeptide binding]; other site 1030009001603 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 1030009001604 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1030009001605 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1030009001606 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1030009001607 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 1030009001608 Glucitol operon activator protein (GutM); Region: GutM; cl01890 1030009001609 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1030009001610 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009001611 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1030009001612 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1030009001613 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1030009001614 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009001615 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009001616 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 1030009001617 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001618 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001619 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1030009001620 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009001621 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1030009001622 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1030009001623 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1030009001624 FOG: CBS domain [General function prediction only]; Region: COG0517 1030009001625 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 1030009001626 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1030009001627 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1030009001628 dimer interface [polypeptide binding]; other site 1030009001629 active site 1030009001630 metal binding site [ion binding]; metal-binding site 1030009001631 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1030009001632 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 1030009001633 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 1030009001634 catalytic core [active] 1030009001635 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 1030009001636 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 1030009001637 catalytic core [active] 1030009001638 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 1030009001639 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 1030009001640 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1030009001641 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1030009001642 Cl binding site [ion binding]; other site 1030009001643 oligomer interface [polypeptide binding]; other site 1030009001644 glutamate dehydrogenase; Provisional; Region: PRK09414 1030009001645 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1030009001646 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1030009001647 NAD(P) binding site [chemical binding]; other site 1030009001648 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 1030009001649 metal binding site [ion binding]; metal-binding site 1030009001650 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1030009001651 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 1030009001652 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1030009001653 substrate binding site [chemical binding]; other site 1030009001654 glutamase interaction surface [polypeptide binding]; other site 1030009001655 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 1030009001656 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1030009001657 catalytic residues [active] 1030009001658 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1030009001659 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1030009001660 putative active site [active] 1030009001661 oxyanion strand; other site 1030009001662 catalytic triad [active] 1030009001663 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1030009001664 putative active site pocket [active] 1030009001665 4-fold oligomerization interface [polypeptide binding]; other site 1030009001666 metal binding residues [ion binding]; metal-binding site 1030009001667 3-fold/trimer interface [polypeptide binding]; other site 1030009001668 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1030009001669 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 1030009001670 NAD binding site [chemical binding]; other site 1030009001671 dimerization interface [polypeptide binding]; other site 1030009001672 product binding site; other site 1030009001673 substrate binding site [chemical binding]; other site 1030009001674 zinc binding site [ion binding]; other site 1030009001675 catalytic residues [active] 1030009001676 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1030009001677 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1030009001678 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 1030009001679 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 1030009001680 dimer interface [polypeptide binding]; other site 1030009001681 motif 1; other site 1030009001682 active site 1030009001683 motif 2; other site 1030009001684 motif 3; other site 1030009001685 histidinol-phosphatase; Reviewed; Region: PRK08123 1030009001686 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1030009001687 active site 1030009001688 dimer interface [polypeptide binding]; other site 1030009001689 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1030009001690 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 1030009001691 DNA binding site [nucleotide binding] 1030009001692 active site 1030009001693 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1030009001694 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1030009001695 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009001696 beta-galactosidase; Region: BGL; TIGR03356 1030009001697 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009001698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009001699 DNA-binding site [nucleotide binding]; DNA binding site 1030009001700 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1030009001701 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001702 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009001703 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1030009001704 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1030009001705 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1030009001706 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1030009001707 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1030009001708 Predicted esterase [General function prediction only]; Region: COG0400 1030009001709 putative hydrolase; Provisional; Region: PRK11460 1030009001710 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1030009001711 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1030009001712 putative RNA binding site [nucleotide binding]; other site 1030009001713 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 1030009001714 S-adenosylmethionine binding site [chemical binding]; other site 1030009001715 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 1030009001716 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009001717 Bacterial SH3 domain; Region: SH3_3; pfam08239 1030009001718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009001719 NlpC/P60 family; Region: NLPC_P60; pfam00877 1030009001720 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 1030009001721 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 1030009001722 ATP binding site [chemical binding]; other site 1030009001723 putative Mg++ binding site [ion binding]; other site 1030009001724 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1030009001725 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 1030009001726 nucleotide binding region [chemical binding]; other site 1030009001727 ATP-binding site [chemical binding]; other site 1030009001728 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1030009001729 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1030009001730 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1030009001731 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1030009001732 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1030009001733 UreD urease accessory protein; Region: UreD; cl00530 1030009001734 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1030009001735 DNA photolyase; Region: DNA_photolyase; pfam00875 1030009001736 Predicted membrane protein [Function unknown]; Region: COG4852 1030009001737 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 1030009001738 DAK2 domain; Region: Dak2; pfam02734 1030009001739 EDD domain protein, DegV family; Region: DegV; TIGR00762 1030009001740 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1030009001741 Steroid 5-alpha reductase family enzyme [General function prediction only]; Region: COG3752 1030009001742 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1030009001743 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1030009001744 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1030009001745 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 1030009001746 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 1030009001747 homodimer interface [polypeptide binding]; other site 1030009001748 substrate-cofactor binding pocket; other site 1030009001749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009001750 catalytic residue [active] 1030009001751 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1030009001752 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1030009001753 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009001754 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 1030009001755 ligand binding site [chemical binding]; other site 1030009001756 flexible hinge region; other site 1030009001757 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1030009001758 non-specific DNA interactions [nucleotide binding]; other site 1030009001759 DNA binding site [nucleotide binding] 1030009001760 sequence specific DNA binding site [nucleotide binding]; other site 1030009001761 putative cAMP binding site [chemical binding]; other site 1030009001762 BioY family; Region: BioY; pfam02632 1030009001763 Predicted transcriptional regulators [Transcription]; Region: COG1695 1030009001764 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1030009001765 Predicted membrane protein [Function unknown]; Region: COG4709 1030009001766 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1030009001767 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1030009001768 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1030009001769 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1030009001770 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1030009001771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009001772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1030009001773 Coenzyme A binding pocket [chemical binding]; other site 1030009001774 Tic20-like protein; Region: Tic20; pfam09685 1030009001775 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 1030009001776 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1030009001777 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1030009001778 MarR family; Region: MarR_2; pfam12802 1030009001779 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009001780 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009001781 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009001782 Walker A/P-loop; other site 1030009001783 ATP binding site [chemical binding]; other site 1030009001784 Q-loop/lid; other site 1030009001785 ABC transporter signature motif; other site 1030009001786 Walker B; other site 1030009001787 D-loop; other site 1030009001788 H-loop/switch region; other site 1030009001789 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009001790 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009001791 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1030009001792 Walker A/P-loop; other site 1030009001793 ATP binding site [chemical binding]; other site 1030009001794 Q-loop/lid; other site 1030009001795 ABC transporter signature motif; other site 1030009001796 Walker B; other site 1030009001797 D-loop; other site 1030009001798 H-loop/switch region; other site 1030009001799 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 1030009001800 active site residue [active] 1030009001801 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 1030009001802 Leucine rich repeat; Region: LRR_8; pfam13855 1030009001803 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009001804 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 1030009001805 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1030009001806 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1030009001807 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1030009001808 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 1030009001809 putative DNA binding site [nucleotide binding]; other site 1030009001810 putative Zn2+ binding site [ion binding]; other site 1030009001811 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1030009001812 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1030009001813 putative NAD(P) binding site [chemical binding]; other site 1030009001814 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 1030009001815 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1030009001816 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1030009001817 putative active site [active] 1030009001818 catalytic site [active] 1030009001819 putative metal binding site [ion binding]; other site 1030009001820 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1030009001821 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1030009001822 active site 1030009001823 ATP binding site [chemical binding]; other site 1030009001824 substrate binding site [chemical binding]; other site 1030009001825 activation loop (A-loop); other site 1030009001826 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 1030009001827 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1030009001828 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 1030009001829 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1030009001830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009001831 Coenzyme A binding pocket [chemical binding]; other site 1030009001832 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 1030009001833 active site 1030009001834 catalytic triad [active] 1030009001835 oxyanion hole [active] 1030009001836 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1030009001837 domain interaction interfaces [polypeptide binding]; other site 1030009001838 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1030009001839 domain interaction interfaces [polypeptide binding]; other site 1030009001840 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1030009001841 domain interaction interfaces [polypeptide binding]; other site 1030009001842 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1030009001843 domain interaction interfaces [polypeptide binding]; other site 1030009001844 Isochorismatase family; Region: Isochorismatase; pfam00857 1030009001845 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 1030009001846 catalytic triad [active] 1030009001847 conserved cis-peptide bond; other site 1030009001848 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1030009001849 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 1030009001850 motif II; other site 1030009001851 Predicted transcriptional regulator [Transcription]; Region: COG1959 1030009001852 Transcriptional regulator; Region: Rrf2; pfam02082 1030009001853 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1030009001854 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 1030009001855 S-adenosylmethionine binding site [chemical binding]; other site 1030009001856 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 1030009001857 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1030009001858 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 1030009001859 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 1030009001860 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 1030009001861 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009001862 active site 1030009001863 catalytic tetrad [active] 1030009001864 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1030009001865 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1030009001866 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 1030009001867 motif II; other site 1030009001868 Transaldolase [Carbohydrate transport and metabolism]; Region: MipB; COG0176 1030009001869 catalytic residue [active] 1030009001870 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1030009001871 Sulfatase; Region: Sulfatase; pfam00884 1030009001872 amino acid transporter; Region: 2A0306; TIGR00909 1030009001873 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1030009001874 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1030009001875 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 1030009001876 putative metal binding site [ion binding]; other site 1030009001877 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 1030009001878 active site 1030009001879 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1030009001880 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1030009001881 Cl binding site [ion binding]; other site 1030009001882 oligomer interface [polypeptide binding]; other site 1030009001883 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1030009001884 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009001885 DNA-binding site [nucleotide binding]; DNA binding site 1030009001886 Predicted membrane protein [Function unknown]; Region: COG1511 1030009001887 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1030009001888 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 1030009001889 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1030009001890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009001891 DNA-binding site [nucleotide binding]; DNA binding site 1030009001892 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1030009001893 Predicted integral membrane protein [Function unknown]; Region: COG5523 1030009001894 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1030009001895 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1030009001896 active site 1030009001897 metal binding site [ion binding]; metal-binding site 1030009001898 Predicted membrane protein [Function unknown]; Region: COG2322 1030009001899 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 1030009001900 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1030009001901 minor groove reading motif; other site 1030009001902 helix-hairpin-helix signature motif; other site 1030009001903 substrate binding pocket [chemical binding]; other site 1030009001904 active site 1030009001905 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 1030009001906 non-specific DNA binding site [nucleotide binding]; other site 1030009001907 salt bridge; other site 1030009001908 sequence-specific DNA binding site [nucleotide binding]; other site 1030009001909 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1030009001910 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1030009001911 Transposase; Region: HTH_Tnp_1; cl17663 1030009001912 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1030009001913 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 1030009001914 dimer interface [polypeptide binding]; other site 1030009001915 substrate binding site [chemical binding]; other site 1030009001916 ATP binding site [chemical binding]; other site 1030009001917 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009001918 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 1030009001919 active site 1030009001920 motif I; other site 1030009001921 motif II; other site 1030009001922 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1030009001923 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 1030009001924 maltose O-acetyltransferase; Provisional; Region: PRK10092 1030009001925 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 1030009001926 active site 1030009001927 substrate binding site [chemical binding]; other site 1030009001928 trimer interface [polypeptide binding]; other site 1030009001929 CoA binding site [chemical binding]; other site 1030009001930 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1030009001931 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1030009001932 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1030009001933 Walker A/P-loop; other site 1030009001934 ATP binding site [chemical binding]; other site 1030009001935 Q-loop/lid; other site 1030009001936 ABC transporter signature motif; other site 1030009001937 Walker B; other site 1030009001938 D-loop; other site 1030009001939 H-loop/switch region; other site 1030009001940 inner membrane transport permease; Provisional; Region: PRK15066 1030009001941 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1030009001942 oxidoreductase; Provisional; Region: PRK07985 1030009001943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1030009001944 NAD(P) binding site [chemical binding]; other site 1030009001945 active site 1030009001946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1030009001947 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1030009001948 Predicted membrane protein [Function unknown]; Region: COG3152 1030009001949 DNA binding domain of the motility gene repressor (MogR); Region: MogR_DNAbind; pfam12181 1030009001950 Flagellar biosynthesis pathway, component FliP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliP; COG1338 1030009001951 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 1030009001952 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 1030009001953 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1030009001954 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1030009001955 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 1030009001956 FHIPEP family; Region: FHIPEP; pfam00771 1030009001957 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12726 1030009001958 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 1030009001959 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12819 1030009001960 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1030009001961 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1030009001962 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1030009001963 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1030009001964 Protein of unknown function (DUF3964); Region: DUF3964; pfam13107 1030009001965 flagellar motor protein MotA; Validated; Region: PRK08124 1030009001966 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1030009001967 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 1030009001968 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1030009001969 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1030009001970 ligand binding site [chemical binding]; other site 1030009001971 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1030009001972 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1030009001973 putative metal binding site; other site 1030009001974 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 1030009001975 binding surface 1030009001976 TPR motif; other site 1030009001977 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1030009001978 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1030009001979 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 1030009001980 active site 1030009001981 phosphorylation site [posttranslational modification] 1030009001982 intermolecular recognition site; other site 1030009001983 dimerization interface [polypeptide binding]; other site 1030009001984 flagellin; Provisional; Region: PRK12805 1030009001985 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1030009001986 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1030009001987 Response regulator receiver domain; Region: Response_reg; pfam00072 1030009001988 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 1030009001989 active site 1030009001990 phosphorylation site [posttranslational modification] 1030009001991 intermolecular recognition site; other site 1030009001992 dimerization interface [polypeptide binding]; other site 1030009001993 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1030009001994 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 1030009001995 putative binding surface; other site 1030009001996 active site 1030009001997 P2 response regulator binding domain; Region: P2; pfam07194 1030009001998 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1030009001999 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 1030009002000 ATP binding site [chemical binding]; other site 1030009002001 Mg2+ binding site [ion binding]; other site 1030009002002 G-X-G motif; other site 1030009002003 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 1030009002004 flagellar motor switch protein; Validated; Region: PRK06788 1030009002005 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1030009002006 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK11911 1030009002007 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1030009002008 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 1030009002009 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1030009002010 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1030009002011 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1030009002012 flagellar motor switch protein; Validated; Region: PRK06789 1030009002013 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1030009002014 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1030009002015 flagellar motor switch protein; Reviewed; Region: PRK06782 1030009002016 CheC-like family; Region: CheC; pfam04509 1030009002017 CheC-like family; Region: CheC; pfam04509 1030009002018 Chemotaxis phosphatase CheX; Region: CheX; cl15816 1030009002019 CheC-like family; Region: CheC; pfam04509 1030009002020 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1030009002021 Protein of unknown function (DUF327); Region: DUF327; pfam03885 1030009002022 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06799 1030009002023 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1030009002024 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08073 1030009002025 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1030009002026 flagellar capping protein; Validated; Region: fliD; PRK06798 1030009002027 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1030009002028 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1030009002029 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 1030009002030 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06797 1030009002031 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 1030009002032 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1030009002033 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK01699 1030009002034 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 1030009002035 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1030009002036 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1030009002037 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 1030009002038 FliG C-terminal domain; Region: FliG_C; pfam01706 1030009002039 flagellar assembly protein H; Validated; Region: fliH; PRK06800 1030009002040 Flagellar assembly protein FliH; Region: FliH; pfam02108 1030009002041 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06793 1030009002042 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 1030009002043 Walker A motif; other site 1030009002044 ATP binding site [chemical binding]; other site 1030009002045 Walker B motif; other site 1030009002046 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1030009002047 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 1030009002048 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1030009002049 catalytic residue [active] 1030009002050 Predicted transcriptional regulators [Transcription]; Region: COG1695 1030009002051 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1030009002052 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 1030009002053 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 1030009002054 pyruvate oxidase; Provisional; Region: PRK08611 1030009002055 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1030009002056 PYR/PP interface [polypeptide binding]; other site 1030009002057 dimer interface [polypeptide binding]; other site 1030009002058 tetramer interface [polypeptide binding]; other site 1030009002059 TPP binding site [chemical binding]; other site 1030009002060 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1030009002061 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 1030009002062 TPP-binding site [chemical binding]; other site 1030009002063 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1030009002064 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1030009002065 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 1030009002066 dimerization interface [polypeptide binding]; other site 1030009002067 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1030009002068 dimer interface [polypeptide binding]; other site 1030009002069 putative CheW interface [polypeptide binding]; other site 1030009002070 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1030009002071 putative active site [active] 1030009002072 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1030009002073 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 1030009002074 glutaminase active site [active] 1030009002075 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 1030009002076 dimer interface [polypeptide binding]; other site 1030009002077 active site 1030009002078 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 1030009002079 dimer interface [polypeptide binding]; other site 1030009002080 active site 1030009002081 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 1030009002082 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1030009002083 active site 1030009002084 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 1030009002085 GIY-YIG motif/motif A; other site 1030009002086 Leucine rich repeat; Region: LRR_8; pfam13855 1030009002087 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002088 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002089 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002090 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009002091 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002092 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002093 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009002094 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1030009002095 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 1030009002096 non-specific DNA binding site [nucleotide binding]; other site 1030009002097 salt bridge; other site 1030009002098 sequence-specific DNA binding site [nucleotide binding]; other site 1030009002099 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009002100 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 1030009002101 ligand binding site [chemical binding]; other site 1030009002102 flexible hinge region; other site 1030009002103 Predicted transcriptional regulators [Transcription]; Region: COG1725 1030009002104 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009002105 DNA-binding site [nucleotide binding]; DNA binding site 1030009002106 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1030009002107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009002108 Walker A/P-loop; other site 1030009002109 ATP binding site [chemical binding]; other site 1030009002110 Q-loop/lid; other site 1030009002111 ABC transporter signature motif; other site 1030009002112 Walker B; other site 1030009002113 D-loop; other site 1030009002114 H-loop/switch region; other site 1030009002115 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009002116 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1030009002117 Walker A/P-loop; other site 1030009002118 ATP binding site [chemical binding]; other site 1030009002119 Q-loop/lid; other site 1030009002120 ABC transporter signature motif; other site 1030009002121 Walker B; other site 1030009002122 D-loop; other site 1030009002123 H-loop/switch region; other site 1030009002124 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1030009002125 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1030009002126 FtsX-like permease family; Region: FtsX; pfam02687 1030009002127 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1030009002128 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 1030009002129 non-specific DNA binding site [nucleotide binding]; other site 1030009002130 salt bridge; other site 1030009002131 sequence-specific DNA binding site [nucleotide binding]; other site 1030009002132 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1030009002133 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009002134 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 1030009002135 ligand binding site [chemical binding]; other site 1030009002136 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 1030009002137 non-specific DNA interactions [nucleotide binding]; other site 1030009002138 DNA binding site [nucleotide binding] 1030009002139 sequence specific DNA binding site [nucleotide binding]; other site 1030009002140 putative cAMP binding site [chemical binding]; other site 1030009002141 SnoaL-like domain; Region: SnoaL_4; pfam13577 1030009002142 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 1030009002143 active site 1030009002144 catalytic triad [active] 1030009002145 oxyanion hole [active] 1030009002146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009002147 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1030009002148 Walker A/P-loop; other site 1030009002149 ATP binding site [chemical binding]; other site 1030009002150 Q-loop/lid; other site 1030009002151 ABC transporter signature motif; other site 1030009002152 Walker B; other site 1030009002153 D-loop; other site 1030009002154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1030009002155 H-loop/switch region; other site 1030009002156 active site 1030009002157 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1030009002158 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1030009002159 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1030009002160 Zn binding site [ion binding]; other site 1030009002161 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1030009002162 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009002163 Zn binding site [ion binding]; other site 1030009002164 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1030009002165 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009002166 Zn binding site [ion binding]; other site 1030009002167 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1030009002168 Zn binding site [ion binding]; other site 1030009002169 Predicted esterase [General function prediction only]; Region: COG0400 1030009002170 putative hydrolase; Provisional; Region: PRK11460 1030009002171 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1030009002172 GTPases [General function prediction only]; Region: HflX; COG2262 1030009002173 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1030009002174 HflX GTPase family; Region: HflX; cd01878 1030009002175 G1 box; other site 1030009002176 GTP/Mg2+ binding site [chemical binding]; other site 1030009002177 Switch I region; other site 1030009002178 G2 box; other site 1030009002179 G3 box; other site 1030009002180 Switch II region; other site 1030009002181 G4 box; other site 1030009002182 G5 box; other site 1030009002183 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1030009002184 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1030009002185 putative active site [active] 1030009002186 putative metal binding site [ion binding]; other site 1030009002187 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1030009002188 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1030009002189 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1030009002190 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1030009002191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009002192 DNA-binding site [nucleotide binding]; DNA binding site 1030009002193 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 1030009002194 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1030009002195 putative NADP binding site [chemical binding]; other site 1030009002196 putative dimer interface [polypeptide binding]; other site 1030009002197 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1030009002198 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1030009002199 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009002200 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009002201 nucleotide binding site [chemical binding]; other site 1030009002202 Predicted membrane protein [Function unknown]; Region: COG4811 1030009002203 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 1030009002204 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1030009002205 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 1030009002206 active site 1030009002207 phosphorylation site [posttranslational modification] 1030009002208 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 1030009002209 active pocket/dimerization site; other site 1030009002210 active site 1030009002211 phosphorylation site [posttranslational modification] 1030009002212 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1030009002213 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 1030009002214 Walker A motif; other site 1030009002215 ATP binding site [chemical binding]; other site 1030009002216 Walker B motif; other site 1030009002217 arginine finger; other site 1030009002218 Transcriptional antiterminator [Transcription]; Region: COG3933 1030009002219 PRD domain; Region: PRD; pfam00874 1030009002220 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 1030009002221 active pocket/dimerization site; other site 1030009002222 active site 1030009002223 phosphorylation site [posttranslational modification] 1030009002224 PRD domain; Region: PRD; pfam00874 1030009002225 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1030009002226 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1030009002227 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1030009002228 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1030009002229 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1030009002230 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1030009002231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1030009002232 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1030009002233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1030009002234 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1030009002235 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1030009002236 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 1030009002237 putative deacylase active site [active] 1030009002238 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1030009002239 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1030009002240 active site 1030009002241 catalytic triad [active] 1030009002242 dimer interface [polypeptide binding]; other site 1030009002243 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1030009002244 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1030009002245 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1030009002246 NAD binding site [chemical binding]; other site 1030009002247 substrate binding site [chemical binding]; other site 1030009002248 putative active site [active] 1030009002249 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1030009002250 EamA-like transporter family; Region: EamA; pfam00892 1030009002251 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1030009002252 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1030009002253 MarR family; Region: MarR_2; pfam12802 1030009002254 lysine transporter; Provisional; Region: PRK10836 1030009002255 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 1030009002256 PAS domain; Region: PAS_9; pfam13426 1030009002257 putative active site [active] 1030009002258 heme pocket [chemical binding]; other site 1030009002259 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 1030009002260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1030009002261 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1030009002262 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1030009002263 synthetase active site [active] 1030009002264 NTP binding site [chemical binding]; other site 1030009002265 metal binding site [ion binding]; metal-binding site 1030009002266 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1030009002267 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1030009002268 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1030009002269 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 1030009002270 non-specific DNA binding site [nucleotide binding]; other site 1030009002271 salt bridge; other site 1030009002272 sequence-specific DNA binding site [nucleotide binding]; other site 1030009002273 Cupin domain; Region: Cupin_2; pfam07883 1030009002274 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1030009002275 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1030009002276 Walker A/P-loop; other site 1030009002277 ATP binding site [chemical binding]; other site 1030009002278 Q-loop/lid; other site 1030009002279 ABC transporter signature motif; other site 1030009002280 Walker B; other site 1030009002281 D-loop; other site 1030009002282 H-loop/switch region; other site 1030009002283 TOBE domain; Region: TOBE_2; pfam08402 1030009002284 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 1030009002285 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 1030009002286 putative PBP binding loops; other site 1030009002287 ABC-ATPase subunit interface; other site 1030009002288 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1030009002289 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 1030009002290 dimer interface [polypeptide binding]; other site 1030009002291 conserved gate region; other site 1030009002292 putative PBP binding loops; other site 1030009002293 ABC-ATPase subunit interface; other site 1030009002294 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1030009002295 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1030009002296 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009002297 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1030009002298 Resolvase, N terminal domain; Region: Resolvase; pfam00239 1030009002299 Helix-turn-helix domain; Region: HTH_28; pfam13518 1030009002300 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1030009002301 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1030009002302 catalytic residues [active] 1030009002303 catalytic nucleophile [active] 1030009002304 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009002305 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009002306 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009002307 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1030009002308 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1030009002309 classical (c) SDRs; Region: SDR_c; cd05233 1030009002310 NAD(P) binding site [chemical binding]; other site 1030009002311 active site 1030009002312 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009002313 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009002314 DNA binding residues [nucleotide binding] 1030009002315 putative dimer interface [polypeptide binding]; other site 1030009002316 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1030009002317 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 1030009002318 active site 1030009002319 zinc binding site [ion binding]; other site 1030009002320 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1030009002321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009002322 Zn2+ binding site [ion binding]; other site 1030009002323 Mg2+ binding site [ion binding]; other site 1030009002324 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009002325 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009002326 nucleotide binding site [chemical binding]; other site 1030009002327 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1030009002328 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 1030009002329 FMN binding site [chemical binding]; other site 1030009002330 substrate binding site [chemical binding]; other site 1030009002331 putative catalytic residue [active] 1030009002332 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 1030009002333 dimer interface [polypeptide binding]; other site 1030009002334 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009002335 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1030009002336 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1030009002337 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1030009002338 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1030009002339 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 1030009002340 motif II; other site 1030009002341 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1030009002342 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1030009002343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009002344 Coenzyme A binding pocket [chemical binding]; other site 1030009002345 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1030009002346 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009002347 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009002348 DNA binding residues [nucleotide binding] 1030009002349 putative dimer interface [polypeptide binding]; other site 1030009002350 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 1030009002351 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009002352 active site 1030009002353 catalytic tetrad [active] 1030009002354 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1030009002355 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1030009002356 homodimer interface [polypeptide binding]; other site 1030009002357 catalytic residues [active] 1030009002358 NAD binding site [chemical binding]; other site 1030009002359 substrate binding pocket [chemical binding]; other site 1030009002360 flexible flap; other site 1030009002361 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1030009002362 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1030009002363 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1030009002364 PhoU domain; Region: PhoU; pfam01895 1030009002365 PhoU domain; Region: PhoU; pfam01895 1030009002366 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1030009002367 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 1030009002368 dimer interface [polypeptide binding]; other site 1030009002369 PYR/PP interface [polypeptide binding]; other site 1030009002370 TPP binding site [chemical binding]; other site 1030009002371 substrate binding site [chemical binding]; other site 1030009002372 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1030009002373 Domain of unknown function; Region: EKR; smart00890 1030009002374 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1030009002375 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 1030009002376 TPP-binding site [chemical binding]; other site 1030009002377 dimer interface [polypeptide binding]; other site 1030009002378 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1030009002379 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1030009002380 Predicted permeases [General function prediction only]; Region: COG0679 1030009002381 Transposase; Region: HTH_Tnp_1; pfam01527 1030009002382 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 1030009002383 non-specific DNA binding site [nucleotide binding]; other site 1030009002384 salt bridge; other site 1030009002385 sequence-specific DNA binding site [nucleotide binding]; other site 1030009002386 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1030009002387 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002388 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002389 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009002390 Predicted membrane protein [Function unknown]; Region: COG3223 1030009002391 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009002392 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1030009002393 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1030009002394 Walker A/P-loop; other site 1030009002395 ATP binding site [chemical binding]; other site 1030009002396 Q-loop/lid; other site 1030009002397 ABC transporter signature motif; other site 1030009002398 Walker B; other site 1030009002399 D-loop; other site 1030009002400 H-loop/switch region; other site 1030009002401 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1030009002402 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 1030009002403 putative substrate translocation pore; other site 1030009002404 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 1030009002405 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 1030009002406 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009002407 putative substrate translocation pore; other site 1030009002408 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1030009002409 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 1030009002410 putative DNA binding site [nucleotide binding]; other site 1030009002411 putative Zn2+ binding site [ion binding]; other site 1030009002412 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1030009002413 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1030009002414 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1030009002415 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1030009002416 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 1030009002417 motif II; other site 1030009002418 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1030009002419 Predicted membrane protein [Function unknown]; Region: COG3326 1030009002420 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 1030009002421 homotrimer interaction site [polypeptide binding]; other site 1030009002422 putative active site [active] 1030009002423 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 1030009002424 substrate binding site [chemical binding]; other site 1030009002425 zinc-binding site [ion binding]; other site 1030009002426 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1030009002427 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1030009002428 GIY-YIG motif/motif A; other site 1030009002429 active site 1030009002430 catalytic site [active] 1030009002431 putative DNA binding site [nucleotide binding]; other site 1030009002432 metal binding site [ion binding]; metal-binding site 1030009002433 UvrB/uvrC motif; Region: UVR; pfam02151 1030009002434 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 1030009002435 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1030009002436 substrate binding pocket [chemical binding]; other site 1030009002437 membrane-bound complex binding site; other site 1030009002438 hinge residues; other site 1030009002439 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1030009002440 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 1030009002441 dimer interface [polypeptide binding]; other site 1030009002442 conserved gate region; other site 1030009002443 putative PBP binding loops; other site 1030009002444 ABC-ATPase subunit interface; other site 1030009002445 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1030009002446 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1030009002447 Walker A/P-loop; other site 1030009002448 ATP binding site [chemical binding]; other site 1030009002449 Q-loop/lid; other site 1030009002450 ABC transporter signature motif; other site 1030009002451 Walker B; other site 1030009002452 D-loop; other site 1030009002453 H-loop/switch region; other site 1030009002454 amidase; Provisional; Region: PRK11910 1030009002455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009002456 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009002457 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1030009002458 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1030009002459 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1030009002460 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1030009002461 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1030009002462 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1030009002463 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1030009002464 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1030009002465 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1030009002466 Esterase/lipase [General function prediction only]; Region: COG1647 1030009002467 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009002468 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009002469 DNA binding site [nucleotide binding] 1030009002470 domain linker motif; other site 1030009002471 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 1030009002472 putative dimerization interface [polypeptide binding]; other site 1030009002473 putative ligand binding site [chemical binding]; other site 1030009002474 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1030009002475 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1030009002476 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 1030009002477 dimer interface [polypeptide binding]; other site 1030009002478 conserved gate region; other site 1030009002479 putative PBP binding loops; other site 1030009002480 ABC-ATPase subunit interface; other site 1030009002481 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1030009002482 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 1030009002483 dimer interface [polypeptide binding]; other site 1030009002484 conserved gate region; other site 1030009002485 ABC-ATPase subunit interface; other site 1030009002486 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1030009002487 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 1030009002488 Ca binding site [ion binding]; other site 1030009002489 active site 1030009002490 catalytic site [active] 1030009002491 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1030009002492 Predicted glycosylase [Carbohydrate transport and metabolism]; Region: COG2152 1030009002493 active site 1030009002494 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 1030009002495 active site 1030009002496 substrate binding site [chemical binding]; other site 1030009002497 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1030009002498 metal binding site [ion binding]; metal-binding site 1030009002499 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 1030009002500 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1030009002501 ATP binding site [chemical binding]; other site 1030009002502 Mg++ binding site [ion binding]; other site 1030009002503 motif III; other site 1030009002504 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 1030009002505 nucleotide binding region [chemical binding]; other site 1030009002506 ATP-binding site [chemical binding]; other site 1030009002507 Predicted membrane protein [Function unknown]; Region: COG4708 1030009002508 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 1030009002509 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 1030009002510 F0F1-type ATP synthase, alpha subunit [Energy production and conversion]; Region: AtpA; COG0056 1030009002511 Predicted transcriptional regulators [Transcription]; Region: COG1733 1030009002512 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1030009002513 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1030009002514 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 1030009002515 putative substrate translocation pore; other site 1030009002516 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009002517 PRD domain; Region: PRD; pfam00874 1030009002518 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 1030009002519 active site 1030009002520 P-loop; other site 1030009002521 phosphorylation site [posttranslational modification] 1030009002522 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 1030009002523 active site 1030009002524 phosphorylation site [posttranslational modification] 1030009002525 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 1030009002526 methionine cluster; other site 1030009002527 active site 1030009002528 phosphorylation site [posttranslational modification] 1030009002529 metal binding site [ion binding]; metal-binding site 1030009002530 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 1030009002531 active site 1030009002532 P-loop; other site 1030009002533 phosphorylation site [posttranslational modification] 1030009002534 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009002535 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009002536 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1030009002537 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 1030009002538 active site 1030009002539 trimer interface [polypeptide binding]; other site 1030009002540 allosteric site; other site 1030009002541 active site lid [active] 1030009002542 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1030009002543 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009002544 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 1030009002545 active site 1030009002546 catalytic tetrad [active] 1030009002547 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1030009002548 Collagen binding domain; Region: Collagen_bind; pfam05737 1030009002549 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1030009002550 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009002551 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 1030009002552 Uncharacterized conserved protein [Function unknown]; Region: COG3402 1030009002553 Predicted membrane protein [Function unknown]; Region: COG3428 1030009002554 Bacterial PH domain; Region: DUF304; pfam03703 1030009002555 Bacterial PH domain; Region: DUF304; pfam03703 1030009002556 Bacterial PH domain; Region: DUF304; pfam03703 1030009002557 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1030009002558 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1030009002559 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1030009002560 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1030009002561 active site 1030009002562 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1030009002563 dimer interface [polypeptide binding]; other site 1030009002564 substrate binding site [chemical binding]; other site 1030009002565 catalytic residues [active] 1030009002566 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1030009002567 PemK-like protein; Region: PemK; pfam02452 1030009002568 Rsbr N terminal; Region: Rsbr_N; pfam08678 1030009002569 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 1030009002570 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 1030009002571 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1030009002572 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1030009002573 ATP binding site [chemical binding]; other site 1030009002574 Mg2+ binding site [ion binding]; other site 1030009002575 G-X-G motif; other site 1030009002576 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1030009002577 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 1030009002578 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1030009002579 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 1030009002580 anti sigma factor interaction site; other site 1030009002581 regulatory phosphorylation site [posttranslational modification]; other site 1030009002582 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1030009002583 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 1030009002584 ATP binding site [chemical binding]; other site 1030009002585 Mg2+ binding site [ion binding]; other site 1030009002586 G-X-G motif; other site 1030009002587 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 1030009002588 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1030009002589 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1030009002590 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 1030009002591 DNA binding residues [nucleotide binding] 1030009002592 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 1030009002593 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1030009002594 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1030009002595 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1030009002596 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 1030009002597 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1030009002598 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1030009002599 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1030009002600 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 1030009002601 RNA binding site [nucleotide binding]; other site 1030009002602 hypothetical protein; Provisional; Region: PRK04351 1030009002603 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1030009002604 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 1030009002605 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1030009002606 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 1030009002607 Uncharacterized conserved protein [Function unknown]; Region: COG5646 1030009002608 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009002609 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009002610 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009002611 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009002612 DNA-binding site [nucleotide binding]; DNA binding site 1030009002613 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1030009002614 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1030009002615 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1030009002616 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1030009002617 glutathione reductase; Validated; Region: PRK06116 1030009002618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1030009002619 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009002620 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1030009002621 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 1030009002622 catalytic core [active] 1030009002623 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1030009002624 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1030009002625 Predicted transcriptional regulators [Transcription]; Region: COG1725 1030009002626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009002627 DNA-binding site [nucleotide binding]; DNA binding site 1030009002628 Predicted membrane protein [General function prediction only]; Region: COG4194 1030009002629 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1030009002630 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1030009002631 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1030009002632 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1030009002633 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1030009002634 tetramerization interface [polypeptide binding]; other site 1030009002635 NAD(P) binding site [chemical binding]; other site 1030009002636 catalytic residues [active] 1030009002637 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 1030009002638 active site 1030009002639 P-loop; other site 1030009002640 phosphorylation site [posttranslational modification] 1030009002641 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009002642 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009002643 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 1030009002644 methionine cluster; other site 1030009002645 active site 1030009002646 phosphorylation site [posttranslational modification] 1030009002647 metal binding site [ion binding]; metal-binding site 1030009002648 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009002649 beta-galactosidase; Region: BGL; TIGR03356 1030009002650 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009002651 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009002652 PRD domain; Region: PRD; pfam00874 1030009002653 PRD domain; Region: PRD; pfam00874 1030009002654 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 1030009002655 active site 1030009002656 phosphorylation site [posttranslational modification] 1030009002657 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009002658 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1030009002659 ABC transporter; Region: ABC_tran_2; pfam12848 1030009002660 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009002661 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 1030009002662 Predicted permeases [General function prediction only]; Region: COG0701 1030009002663 Predicted membrane protein [Function unknown]; Region: COG3689 1030009002664 pantothenate kinase; Provisional; Region: PRK05439 1030009002665 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 1030009002666 ATP-binding site [chemical binding]; other site 1030009002667 CoA-binding site [chemical binding]; other site 1030009002668 Mg2+-binding site [ion binding]; other site 1030009002669 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1030009002670 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1030009002671 Walker A/P-loop; other site 1030009002672 ATP binding site [chemical binding]; other site 1030009002673 Q-loop/lid; other site 1030009002674 ABC transporter signature motif; other site 1030009002675 Walker B; other site 1030009002676 D-loop; other site 1030009002677 H-loop/switch region; other site 1030009002678 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1030009002679 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1030009002680 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009002681 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009002682 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1030009002683 Domain of unknown function (DUF373); Region: DUF373; cl12079 1030009002684 Sulfatase; Region: Sulfatase; pfam00884 1030009002685 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1030009002686 active site 1030009002687 DNA binding site [nucleotide binding] 1030009002688 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 1030009002689 active site 1030009002690 catalytic site [active] 1030009002691 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1030009002692 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1030009002693 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1030009002694 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1030009002695 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1030009002696 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1030009002697 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1030009002698 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1030009002699 epoxyqueuosine reductase; Region: TIGR00276 1030009002700 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1030009002701 A new structural DNA glycosylase; Region: AlkD_like; cl11434 1030009002702 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1030009002703 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 1030009002704 dimer interface [polypeptide binding]; other site 1030009002705 FMN binding site [chemical binding]; other site 1030009002706 NADPH bind site [chemical binding]; other site 1030009002707 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1030009002708 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1030009002709 active site 1030009002710 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 1030009002711 HSP90 family protein; Provisional; Region: PRK14083 1030009002712 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 1030009002713 ATP binding site [chemical binding]; other site 1030009002714 Mg2+ binding site [ion binding]; other site 1030009002715 G-X-G motif; other site 1030009002716 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1030009002717 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1030009002718 dimerization interface [polypeptide binding]; other site 1030009002719 DPS ferroxidase diiron center [ion binding]; other site 1030009002720 ion pore; other site 1030009002721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 1030009002722 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1030009002723 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1030009002724 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1030009002725 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1030009002726 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 1030009002727 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1030009002728 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 1030009002729 putative substrate translocation pore; other site 1030009002730 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1030009002731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009002732 DNA-binding site [nucleotide binding]; DNA binding site 1030009002733 FCD domain; Region: FCD; pfam07729 1030009002734 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1030009002735 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1030009002736 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1030009002737 PGAP1-like protein; Region: PGAP1; pfam07819 1030009002738 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 1030009002739 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 1030009002740 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1030009002741 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1030009002742 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1030009002743 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 1030009002744 active site 1030009002745 dimer interface [polypeptide binding]; other site 1030009002746 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1030009002747 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 1030009002748 active site 1030009002749 trimer interface [polypeptide binding]; other site 1030009002750 allosteric site; other site 1030009002751 active site lid [active] 1030009002752 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1030009002753 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009002754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009002755 DNA-binding site [nucleotide binding]; DNA binding site 1030009002756 UTRA domain; Region: UTRA; pfam07702 1030009002757 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1030009002758 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 1030009002759 Mg++ binding site [ion binding]; other site 1030009002760 putative catalytic motif [active] 1030009002761 substrate binding site [chemical binding]; other site 1030009002762 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1030009002763 Peptidase family U32; Region: Peptidase_U32; pfam01136 1030009002764 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1030009002765 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 1030009002766 Peptidase family U32; Region: Peptidase_U32; pfam01136 1030009002767 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1030009002768 heat shock protein HtpX; Provisional; Region: PRK04897 1030009002769 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1030009002770 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 1030009002771 catalytic residues [active] 1030009002772 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1030009002773 putative active site [active] 1030009002774 putative metal binding residues [ion binding]; other site 1030009002775 signature motif; other site 1030009002776 putative triphosphate binding site [ion binding]; other site 1030009002777 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 1030009002778 TPR motif; other site 1030009002779 binding surface 1030009002780 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1030009002781 Tetratrico peptide repeat; Region: TPR_5; pfam12688 1030009002782 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1030009002783 synthetase active site [active] 1030009002784 NTP binding site [chemical binding]; other site 1030009002785 metal binding site [ion binding]; metal-binding site 1030009002786 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1030009002787 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1030009002788 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1030009002789 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1030009002790 active site 1030009002791 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 1030009002792 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1030009002793 NAD binding site [chemical binding]; other site 1030009002794 homotetramer interface [polypeptide binding]; other site 1030009002795 homodimer interface [polypeptide binding]; other site 1030009002796 substrate binding site [chemical binding]; other site 1030009002797 active site 1030009002798 DltD N-terminal region; Region: DltD_N; pfam04915 1030009002799 DltD central region; Region: DltD_M; pfam04918 1030009002800 DltD C-terminal region; Region: DltD_C; pfam04914 1030009002801 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1030009002802 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1030009002803 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1030009002804 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1030009002805 acyl-activating enzyme (AAE) consensus motif; other site 1030009002806 AMP binding site [chemical binding]; other site 1030009002807 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 1030009002808 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 1030009002809 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009002810 active site 1030009002811 dimer interface [polypeptide binding]; other site 1030009002812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009002813 Coenzyme A binding pocket [chemical binding]; other site 1030009002814 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1030009002815 Putative esterase; Region: Esterase; pfam00756 1030009002816 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1030009002817 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 1030009002818 homodimer interface [polypeptide binding]; other site 1030009002819 substrate-cofactor binding pocket; other site 1030009002820 catalytic residue [active] 1030009002821 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1030009002822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009002823 Walker A/P-loop; other site 1030009002824 ATP binding site [chemical binding]; other site 1030009002825 Q-loop/lid; other site 1030009002826 ABC transporter signature motif; other site 1030009002827 Walker B; other site 1030009002828 D-loop; other site 1030009002829 H-loop/switch region; other site 1030009002830 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1030009002831 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1030009002832 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 1030009002833 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009002834 putative substrate translocation pore; other site 1030009002835 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1030009002836 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1030009002837 putative oligomer interface [polypeptide binding]; other site 1030009002838 putative active site [active] 1030009002839 metal binding site [ion binding]; metal-binding site 1030009002840 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 1030009002841 catalytic residues [active] 1030009002842 dimer interface [polypeptide binding]; other site 1030009002843 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1030009002844 LytTr DNA-binding domain; Region: LytTR; smart00850 1030009002845 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1030009002846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009002847 Walker A/P-loop; other site 1030009002848 ATP binding site [chemical binding]; other site 1030009002849 Q-loop/lid; other site 1030009002850 ABC transporter signature motif; other site 1030009002851 Walker B; other site 1030009002852 D-loop; other site 1030009002853 H-loop/switch region; other site 1030009002854 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1030009002855 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1030009002856 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1030009002857 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1030009002858 G1 box; other site 1030009002859 putative GEF interaction site [polypeptide binding]; other site 1030009002860 GTP/Mg2+ binding site [chemical binding]; other site 1030009002861 Switch I region; other site 1030009002862 G2 box; other site 1030009002863 G3 box; other site 1030009002864 Switch II region; other site 1030009002865 G4 box; other site 1030009002866 G5 box; other site 1030009002867 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 1030009002868 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1030009002869 MarR family; Region: MarR_2; cl17246 1030009002870 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1030009002871 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1030009002872 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 1030009002873 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 1030009002874 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1030009002875 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1030009002876 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1030009002877 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1030009002878 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 1030009002879 DNA binding site [nucleotide binding] 1030009002880 active site 1030009002881 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 1030009002882 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1030009002883 Walker A motif; other site 1030009002884 ATP binding site [chemical binding]; other site 1030009002885 Walker B motif; other site 1030009002886 arginine finger; other site 1030009002887 UvrB/uvrC motif; Region: UVR; pfam02151 1030009002888 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 1030009002889 Walker A motif; other site 1030009002890 ATP binding site [chemical binding]; other site 1030009002891 Walker B motif; other site 1030009002892 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1030009002893 CAAX protease self-immunity; Region: Abi; pfam02517 1030009002894 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1030009002895 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1030009002896 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 1030009002897 nucleotide binding site [chemical binding]; other site 1030009002898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4873 1030009002899 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 1030009002900 dimerization domain swap beta strand [polypeptide binding]; other site 1030009002901 regulatory protein interface [polypeptide binding]; other site 1030009002902 active site 1030009002903 regulatory phosphorylation site [posttranslational modification]; other site 1030009002904 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1030009002905 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1030009002906 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1030009002907 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1030009002908 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 1030009002909 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1030009002910 putative active site [active] 1030009002911 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1030009002912 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1030009002913 aminotransferase A; Validated; Region: PRK07683 1030009002914 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 1030009002915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009002916 homodimer interface [polypeptide binding]; other site 1030009002917 catalytic residue [active] 1030009002918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 1030009002919 FOG: CBS domain [General function prediction only]; Region: COG0517 1030009002920 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 1030009002921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1030009002922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1030009002923 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 1030009002924 dimerization interface [polypeptide binding]; other site 1030009002925 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1030009002926 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1030009002927 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 1030009002928 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 1030009002929 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1030009002930 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1030009002931 metal binding site [ion binding]; metal-binding site 1030009002932 putative dimer interface [polypeptide binding]; other site 1030009002933 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1030009002934 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 1030009002935 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1030009002936 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1030009002937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009002938 Walker A/P-loop; other site 1030009002939 ATP binding site [chemical binding]; other site 1030009002940 Q-loop/lid; other site 1030009002941 ABC transporter signature motif; other site 1030009002942 Walker B; other site 1030009002943 D-loop; other site 1030009002944 H-loop/switch region; other site 1030009002945 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 1030009002946 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 1030009002947 dimer interface [polypeptide binding]; other site 1030009002948 conserved gate region; other site 1030009002949 putative PBP binding loops; other site 1030009002950 ABC-ATPase subunit interface; other site 1030009002951 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1030009002952 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1030009002953 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1030009002954 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1030009002955 HPr interaction site; other site 1030009002956 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1030009002957 active site 1030009002958 phosphorylation site [posttranslational modification] 1030009002959 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1030009002960 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1030009002961 S1 domain; Region: S1_2; pfam13509 1030009002962 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1030009002963 RNA binding site [nucleotide binding]; other site 1030009002964 Predicted membrane protein [Function unknown]; Region: COG4758 1030009002965 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1030009002966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1030009002967 Histidine kinase; Region: HisKA_3; pfam07730 1030009002968 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 1030009002969 ATP binding site [chemical binding]; other site 1030009002970 Mg2+ binding site [ion binding]; other site 1030009002971 G-X-G motif; other site 1030009002972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1030009002973 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 1030009002974 active site 1030009002975 phosphorylation site [posttranslational modification] 1030009002976 intermolecular recognition site; other site 1030009002977 dimerization interface [polypeptide binding]; other site 1030009002978 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 1030009002979 DNA binding residues [nucleotide binding] 1030009002980 dimerization interface [polypeptide binding]; other site 1030009002981 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1030009002982 TrkA-N domain; Region: TrkA_N; pfam02254 1030009002983 TrkA-C domain; Region: TrkA_C; pfam02080 1030009002984 Predicted membrane protein [Function unknown]; Region: COG1289 1030009002985 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1030009002986 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1030009002987 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1030009002988 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1030009002989 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1030009002990 hypothetical protein; Provisional; Region: PRK13667 1030009002991 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009002992 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 1030009002993 active site 1030009002994 motif I; other site 1030009002995 motif II; other site 1030009002996 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 1030009002997 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1030009002998 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1030009002999 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1030009003000 GTP binding site; other site 1030009003001 ATP-binding cassette domain of the molybdenum transport system; Region: ABC_ModC_molybdenum_transporter; cd03297 1030009003002 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1030009003003 Walker A/P-loop; other site 1030009003004 ATP binding site [chemical binding]; other site 1030009003005 Q-loop/lid; other site 1030009003006 ABC transporter signature motif; other site 1030009003007 Walker B; other site 1030009003008 D-loop; other site 1030009003009 H-loop/switch region; other site 1030009003010 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 1030009003011 dimer interface [polypeptide binding]; other site 1030009003012 conserved gate region; other site 1030009003013 putative PBP binding loops; other site 1030009003014 ABC-ATPase subunit interface; other site 1030009003015 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1030009003016 PBP superfamily domain; Region: PBP_like_2; cl17296 1030009003017 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 1030009003018 membrane-bound complex binding site; other site 1030009003019 hinge residues; other site 1030009003020 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1030009003021 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 1030009003022 dimer interface [polypeptide binding]; other site 1030009003023 putative functional site; other site 1030009003024 putative MPT binding site; other site 1030009003025 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 1030009003026 Walker A motif; other site 1030009003027 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 1030009003028 MoaE homodimer interface [polypeptide binding]; other site 1030009003029 MoaD interaction [polypeptide binding]; other site 1030009003030 active site residues [active] 1030009003031 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1030009003032 MoaE interaction surface [polypeptide binding]; other site 1030009003033 MoeB interaction surface [polypeptide binding]; other site 1030009003034 thiocarboxylated glycine; other site 1030009003035 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 1030009003036 trimer interface [polypeptide binding]; other site 1030009003037 dimer interface [polypeptide binding]; other site 1030009003038 putative active site [active] 1030009003039 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 1030009003040 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 1030009003041 FeS/SAM binding site; other site 1030009003042 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1030009003043 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 1030009003044 MPT binding site; other site 1030009003045 trimer interface [polypeptide binding]; other site 1030009003046 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 1030009003047 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 1030009003048 ATP binding site [chemical binding]; other site 1030009003049 substrate interface [chemical binding]; other site 1030009003050 Flavin Reductases; Region: FlaRed; cl00801 1030009003051 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 1030009003052 active site 1030009003053 catalytic residues [active] 1030009003054 metal binding site [ion binding]; metal-binding site 1030009003055 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1030009003056 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 1030009003057 TPP-binding site [chemical binding]; other site 1030009003058 tetramer interface [polypeptide binding]; other site 1030009003059 heterodimer interface [polypeptide binding]; other site 1030009003060 phosphorylation loop region [posttranslational modification] 1030009003061 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1030009003062 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 1030009003063 alpha subunit interface [polypeptide binding]; other site 1030009003064 TPP binding site [chemical binding]; other site 1030009003065 heterodimer interface [polypeptide binding]; other site 1030009003066 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1030009003067 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1030009003068 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 1030009003069 E3 interaction surface; other site 1030009003070 lipoyl attachment site [posttranslational modification]; other site 1030009003071 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 1030009003072 E3 interaction surface; other site 1030009003073 lipoyl attachment site [posttranslational modification]; other site 1030009003074 e3 binding domain; Region: E3_binding; pfam02817 1030009003075 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1030009003076 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1030009003077 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1030009003078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009003079 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1030009003080 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 1030009003081 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1030009003082 NAD(P) binding site [chemical binding]; other site 1030009003083 LDH/MDH dimer interface [polypeptide binding]; other site 1030009003084 substrate binding site [chemical binding]; other site 1030009003085 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 1030009003086 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1030009003087 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1030009003088 catalytic residues [active] 1030009003089 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1030009003090 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1030009003091 Cl binding site [ion binding]; other site 1030009003092 oligomer interface [polypeptide binding]; other site 1030009003093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 1030009003094 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 1030009003095 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 1030009003096 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1030009003097 active site 1030009003098 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1030009003099 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1030009003100 G1 box; other site 1030009003101 putative GEF interaction site [polypeptide binding]; other site 1030009003102 GTP/Mg2+ binding site [chemical binding]; other site 1030009003103 Switch I region; other site 1030009003104 G2 box; other site 1030009003105 G3 box; other site 1030009003106 Switch II region; other site 1030009003107 G4 box; other site 1030009003108 G5 box; other site 1030009003109 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 1030009003110 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 1030009003111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4896 1030009003112 hypothetical protein; Provisional; Region: PRK13666 1030009003113 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1030009003114 pyruvate carboxylase; Reviewed; Region: PRK12999 1030009003115 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1030009003116 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1030009003117 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1030009003118 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1030009003119 active site 1030009003120 catalytic residues [active] 1030009003121 metal binding site [ion binding]; metal-binding site 1030009003122 homodimer binding site [polypeptide binding]; other site 1030009003123 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 1030009003124 carboxyltransferase (CT) interaction site; other site 1030009003125 biotinylation site [posttranslational modification]; other site 1030009003126 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 1030009003127 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1030009003128 putative binding site residues; other site 1030009003129 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1030009003130 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1030009003131 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1030009003132 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1030009003133 Walker A/P-loop; other site 1030009003134 ATP binding site [chemical binding]; other site 1030009003135 Q-loop/lid; other site 1030009003136 ABC transporter signature motif; other site 1030009003137 Walker B; other site 1030009003138 D-loop; other site 1030009003139 H-loop/switch region; other site 1030009003140 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1030009003141 SH3-like domain; Region: SH3_8; pfam13457 1030009003142 SH3-like domain; Region: SH3_8; pfam13457 1030009003143 SH3-like domain; Region: SH3_8; pfam13457 1030009003144 SH3-like domain; Region: SH3_8; pfam13457 1030009003145 SH3-like domain; Region: SH3_8; pfam13457 1030009003146 SH3-like domain; Region: SH3_8; pfam13457 1030009003147 SH3-like domain; Region: SH3_8; pfam13457 1030009003148 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1030009003149 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1030009003150 Ligand binding site; other site 1030009003151 Putative Catalytic site; other site 1030009003152 DXD motif; other site 1030009003153 conserved hypothetical integral membrane protein; Region: TIGR03766 1030009003154 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1030009003155 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1030009003156 active site 1030009003157 tetramer interface; other site 1030009003158 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 1030009003159 active site 1030009003160 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1030009003161 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1030009003162 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1030009003163 substrate binding site; other site 1030009003164 dimer interface; other site 1030009003165 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 1030009003166 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1030009003167 putative NAD(P) binding site [chemical binding]; other site 1030009003168 putative catalytic Zn binding site [ion binding]; other site 1030009003169 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1030009003170 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 1030009003171 active site 1030009003172 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1030009003173 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1030009003174 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1030009003175 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1030009003176 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 1030009003177 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1030009003178 active site 1030009003179 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1030009003180 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 1030009003181 active site 1030009003182 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1030009003183 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 1030009003184 homodimer interface [polypeptide binding]; other site 1030009003185 NAD binding pocket [chemical binding]; other site 1030009003186 ATP binding pocket [chemical binding]; other site 1030009003187 Mg binding site [ion binding]; other site 1030009003188 active-site loop [active] 1030009003189 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1030009003190 Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]; Region: CelA; COG1440 1030009003191 active site 1030009003192 P-loop; other site 1030009003193 phosphorylation site [posttranslational modification] 1030009003194 GMP synthase; Reviewed; Region: guaA; PRK00074 1030009003195 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1030009003196 AMP/PPi binding site [chemical binding]; other site 1030009003197 candidate oxyanion hole; other site 1030009003198 catalytic triad [active] 1030009003199 potential glutamine specificity residues [chemical binding]; other site 1030009003200 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 1030009003201 ATP Binding subdomain [chemical binding]; other site 1030009003202 Dimerization subdomain; other site 1030009003203 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 1030009003204 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1030009003205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009003206 Coenzyme A binding pocket [chemical binding]; other site 1030009003207 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1030009003208 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1030009003209 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1030009003210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009003211 Coenzyme A binding pocket [chemical binding]; other site 1030009003212 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009003213 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1030009003214 DNA binding residues [nucleotide binding] 1030009003215 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 1030009003216 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009003217 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009003218 Walker A/P-loop; other site 1030009003219 ATP binding site [chemical binding]; other site 1030009003220 Q-loop/lid; other site 1030009003221 ABC transporter signature motif; other site 1030009003222 Walker B; other site 1030009003223 D-loop; other site 1030009003224 H-loop/switch region; other site 1030009003225 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009003226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009003227 Walker A/P-loop; other site 1030009003228 ATP binding site [chemical binding]; other site 1030009003229 Q-loop/lid; other site 1030009003230 ABC transporter signature motif; other site 1030009003231 Walker B; other site 1030009003232 D-loop; other site 1030009003233 H-loop/switch region; other site 1030009003234 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1030009003235 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009003236 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009003237 DNA binding residues [nucleotide binding] 1030009003238 putative dimer interface [polypeptide binding]; other site 1030009003239 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1030009003240 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 1030009003241 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 1030009003242 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1030009003243 LRR adjacent; Region: LRR_adjacent; pfam08191 1030009003244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 1030009003245 Clp protease; Region: CLP_protease; pfam00574 1030009003246 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1030009003247 oligomer interface [polypeptide binding]; other site 1030009003248 active site residues [active] 1030009003249 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 1030009003250 dimer interface [polypeptide binding]; other site 1030009003251 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009003252 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1030009003253 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1030009003254 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 1030009003255 SLBB domain; Region: SLBB; pfam10531 1030009003256 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1030009003257 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 1030009003258 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1030009003259 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 1030009003260 putative hexamer interface [polypeptide binding]; other site 1030009003261 putative hexagonal pore; other site 1030009003262 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 1030009003263 putative hexamer interface [polypeptide binding]; other site 1030009003264 putative hexagonal pore; other site 1030009003265 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1030009003266 putative hexamer interface [polypeptide binding]; other site 1030009003267 putative hexagonal pore; other site 1030009003268 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1030009003269 G1 box; other site 1030009003270 GTP/Mg2+ binding site [chemical binding]; other site 1030009003271 G2 box; other site 1030009003272 Switch I region; other site 1030009003273 G3 box; other site 1030009003274 Switch II region; other site 1030009003275 G4 box; other site 1030009003276 G5 box; other site 1030009003277 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 1030009003278 homotrimer interface [polypeptide binding]; other site 1030009003279 Walker A motif; other site 1030009003280 GTP binding site [chemical binding]; other site 1030009003281 Walker B motif; other site 1030009003282 Cobalamin-5-phosphate synthase [Coenzyme metabolism]; Region: CobS; COG0368 1030009003283 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 1030009003284 catalytic core [active] 1030009003285 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1030009003286 Sensory domain found in PocR; Region: PocR; pfam10114 1030009003287 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009003288 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1030009003289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009003290 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1030009003291 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1030009003292 Hexamer interface [polypeptide binding]; other site 1030009003293 Hexagonal pore residue; other site 1030009003294 propanediol utilization protein PduB; Provisional; Region: PRK15415 1030009003295 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 1030009003296 putative hexamer interface [polypeptide binding]; other site 1030009003297 putative hexagonal pore; other site 1030009003298 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 1030009003299 putative hexamer interface [polypeptide binding]; other site 1030009003300 putative hexagonal pore; other site 1030009003301 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 1030009003302 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 1030009003303 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 1030009003304 alpha-beta subunit interface [polypeptide binding]; other site 1030009003305 alpha-gamma subunit interface [polypeptide binding]; other site 1030009003306 active site 1030009003307 substrate and K+ binding site; other site 1030009003308 K+ binding site [ion binding]; other site 1030009003309 cobalamin binding site [chemical binding]; other site 1030009003310 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 1030009003311 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 1030009003312 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 1030009003313 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 1030009003314 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1030009003315 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 1030009003316 putative hexamer interface [polypeptide binding]; other site 1030009003317 putative hexagonal pore; other site 1030009003318 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1030009003319 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1030009003320 Hexamer interface [polypeptide binding]; other site 1030009003321 Hexagonal pore residue; other site 1030009003322 Propanediol utilization protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduL; COG4869 1030009003323 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1030009003324 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1030009003325 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 1030009003326 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009003327 nucleotide binding site [chemical binding]; other site 1030009003328 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1030009003329 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 1030009003330 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1030009003331 Hexamer/Pentamer interface [polypeptide binding]; other site 1030009003332 central pore; other site 1030009003333 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1030009003334 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1030009003335 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 1030009003336 putative catalytic cysteine [active] 1030009003337 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1030009003338 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 1030009003339 putative active site [active] 1030009003340 metal binding site [ion binding]; metal-binding site 1030009003341 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 1030009003342 amphipathic channel; other site 1030009003343 Asn-Pro-Ala signature motifs; other site 1030009003344 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1030009003345 propionate/acetate kinase; Provisional; Region: PRK12379 1030009003346 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 1030009003347 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 1030009003348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009003349 homodimer interface [polypeptide binding]; other site 1030009003350 catalytic residue [active] 1030009003351 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1030009003352 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1030009003353 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 1030009003354 putative active site [active] 1030009003355 metal binding site [ion binding]; metal-binding site 1030009003356 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1030009003357 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 1030009003358 active site 1030009003359 phosphorylation site [posttranslational modification] 1030009003360 intermolecular recognition site; other site 1030009003361 dimerization interface [polypeptide binding]; other site 1030009003362 ANTAR domain; Region: ANTAR; pfam03861 1030009003363 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 1030009003364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1030009003365 Histidine kinase; Region: HisKA_2; pfam07568 1030009003366 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 1030009003367 ATP binding site [chemical binding]; other site 1030009003368 Mg2+ binding site [ion binding]; other site 1030009003369 G-X-G motif; other site 1030009003370 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 1030009003371 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 1030009003372 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1030009003373 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 1030009003374 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 1030009003375 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 1030009003376 putative hexamer interface [polypeptide binding]; other site 1030009003377 putative hexagonal pore; other site 1030009003378 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 1030009003379 putative hexamer interface [polypeptide binding]; other site 1030009003380 putative hexagonal pore; other site 1030009003381 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1030009003382 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1030009003383 Hexamer interface [polypeptide binding]; other site 1030009003384 Hexagonal pore residue; other site 1030009003385 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1030009003386 putative catalytic cysteine [active] 1030009003387 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1030009003388 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1030009003389 Hexamer interface [polypeptide binding]; other site 1030009003390 Putative hexagonal pore residue; other site 1030009003391 Ethanolamine utilization cobalamin adenosyltransferase [Amino acid transport and metabolism]; Region: EutT; COG4812 1030009003392 Propanediol utilization protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduL; COG4869 1030009003393 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1030009003394 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1030009003395 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 1030009003396 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1030009003397 Hexamer/Pentamer interface [polypeptide binding]; other site 1030009003398 central pore; other site 1030009003399 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 1030009003400 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 1030009003401 putative hexamer interface [polypeptide binding]; other site 1030009003402 putative hexagonal pore; other site 1030009003403 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 1030009003404 putative hexamer interface [polypeptide binding]; other site 1030009003405 putative hexagonal pore; other site 1030009003406 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 1030009003407 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 1030009003408 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 1030009003409 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009003410 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1030009003411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009003412 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 1030009003413 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1030009003414 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1030009003415 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1030009003416 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1030009003417 catalytic triad [active] 1030009003418 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1030009003419 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 1030009003420 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1030009003421 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 1030009003422 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1030009003423 active site 1030009003424 putative homodimer interface [polypeptide binding]; other site 1030009003425 SAM binding site [chemical binding]; other site 1030009003426 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 1030009003427 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 1030009003428 S-adenosylmethionine binding site [chemical binding]; other site 1030009003429 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1030009003430 active site 1030009003431 SAM binding site [chemical binding]; other site 1030009003432 homodimer interface [polypeptide binding]; other site 1030009003433 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1030009003434 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1030009003435 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1030009003436 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1030009003437 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1030009003438 active site 1030009003439 SAM binding site [chemical binding]; other site 1030009003440 homodimer interface [polypeptide binding]; other site 1030009003441 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1030009003442 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1030009003443 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1030009003444 active site 1030009003445 SAM binding site [chemical binding]; other site 1030009003446 homodimer interface [polypeptide binding]; other site 1030009003447 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1030009003448 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 1030009003449 active site 1030009003450 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 1030009003451 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 1030009003452 active site 1030009003453 C-terminal domain interface [polypeptide binding]; other site 1030009003454 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 1030009003455 active site 1030009003456 N-terminal domain interface [polypeptide binding]; other site 1030009003457 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1030009003458 active site 1030009003459 SAM binding site [chemical binding]; other site 1030009003460 homodimer interface [polypeptide binding]; other site 1030009003461 cobalt transport protein CbiM; Validated; Region: PRK08319 1030009003462 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1030009003463 ABC-type cobalt transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiN; COG1930 1030009003464 cobalt transport protein CbiQ; Provisional; Region: PRK15485 1030009003465 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 1030009003466 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1030009003467 Walker A/P-loop; other site 1030009003468 ATP binding site [chemical binding]; other site 1030009003469 Q-loop/lid; other site 1030009003470 ABC transporter signature motif; other site 1030009003471 Walker B; other site 1030009003472 D-loop; other site 1030009003473 H-loop/switch region; other site 1030009003474 cobyric acid synthase; Provisional; Region: PRK00784 1030009003475 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 1030009003476 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 1030009003477 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1030009003478 catalytic triad [active] 1030009003479 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1030009003480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1030009003481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1030009003482 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1030009003483 AAA domain; Region: AAA_17; pfam13207 1030009003484 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1030009003485 SH3-like domain; Region: SH3_8; pfam13457 1030009003486 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1030009003487 SH3-like domain; Region: SH3_8; pfam13457 1030009003488 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1030009003489 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1030009003490 oligomer interface [polypeptide binding]; other site 1030009003491 active site 1030009003492 metal binding site [ion binding]; metal-binding site 1030009003493 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1030009003494 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1030009003495 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1030009003496 Predicted transcriptional regulators [Transcription]; Region: COG1733 1030009003497 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1030009003498 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1030009003499 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1030009003500 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 1030009003501 dimer interface [polypeptide binding]; other site 1030009003502 motif 1; other site 1030009003503 active site 1030009003504 motif 2; other site 1030009003505 motif 3; other site 1030009003506 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1030009003507 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 1030009003508 putative tRNA-binding site [nucleotide binding]; other site 1030009003509 B3/4 domain; Region: B3_4; pfam03483 1030009003510 tRNA synthetase B5 domain; Region: B5; smart00874 1030009003511 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 1030009003512 dimer interface [polypeptide binding]; other site 1030009003513 motif 1; other site 1030009003514 motif 3; other site 1030009003515 motif 2; other site 1030009003516 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1030009003517 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009003518 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009003519 Walker A/P-loop; other site 1030009003520 ATP binding site [chemical binding]; other site 1030009003521 Q-loop/lid; other site 1030009003522 ABC transporter signature motif; other site 1030009003523 Walker B; other site 1030009003524 D-loop; other site 1030009003525 H-loop/switch region; other site 1030009003526 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1030009003527 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1030009003528 FtsX-like permease family; Region: FtsX; pfam02687 1030009003529 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1030009003530 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1030009003531 FtsX-like permease family; Region: FtsX; pfam02687 1030009003532 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1030009003533 MarR family; Region: MarR; pfam01047 1030009003534 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1030009003535 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 1030009003536 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1030009003537 ligand binding site [chemical binding]; other site 1030009003538 active site 1030009003539 UGI interface [polypeptide binding]; other site 1030009003540 catalytic site [active] 1030009003541 ribonuclease HIII; Provisional; Region: PRK00996 1030009003542 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1030009003543 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1030009003544 RNA/DNA hybrid binding site [nucleotide binding]; other site 1030009003545 active site 1030009003546 Cell division protein ZapA; Region: ZapA; cl01146 1030009003547 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1030009003548 Colicin V production protein; Region: Colicin_V; pfam02674 1030009003549 hypothetical protein; Provisional; Region: PRK08609 1030009003550 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 1030009003551 active site 1030009003552 primer binding site [nucleotide binding]; other site 1030009003553 NTP binding site [chemical binding]; other site 1030009003554 metal binding triad [ion binding]; metal-binding site 1030009003555 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1030009003556 active site 1030009003557 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1030009003558 MutS domain III; Region: MutS_III; pfam05192 1030009003559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009003560 Walker A/P-loop; other site 1030009003561 ATP binding site [chemical binding]; other site 1030009003562 Q-loop/lid; other site 1030009003563 ABC transporter signature motif; other site 1030009003564 Walker B; other site 1030009003565 D-loop; other site 1030009003566 H-loop/switch region; other site 1030009003567 Smr domain; Region: Smr; pfam01713 1030009003568 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 1030009003569 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1030009003570 catalytic residues [active] 1030009003571 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1030009003572 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1030009003573 GIY-YIG motif/motif A; other site 1030009003574 active site 1030009003575 catalytic site [active] 1030009003576 putative DNA binding site [nucleotide binding]; other site 1030009003577 metal binding site [ion binding]; metal-binding site 1030009003578 UvrB/uvrC motif; Region: UVR; pfam02151 1030009003579 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1030009003580 aspartate kinase; Reviewed; Region: PRK06635 1030009003581 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 1030009003582 putative nucleotide binding site [chemical binding]; other site 1030009003583 putative catalytic residues [active] 1030009003584 putative Mg ion binding site [ion binding]; other site 1030009003585 putative aspartate binding site [chemical binding]; other site 1030009003586 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 1030009003587 putative allosteric regulatory site; other site 1030009003588 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 1030009003589 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 1030009003590 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 1030009003591 ribonuclease PH; Reviewed; Region: rph; PRK00173 1030009003592 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1030009003593 hexamer interface [polypeptide binding]; other site 1030009003594 active site 1030009003595 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 1030009003596 active site 1030009003597 dimerization interface [polypeptide binding]; other site 1030009003598 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1030009003599 active site 1030009003600 metal binding site [ion binding]; metal-binding site 1030009003601 homotetramer interface [polypeptide binding]; other site 1030009003602 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1030009003603 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 1030009003604 Int/Topo IB signature motif; other site 1030009003605 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1030009003606 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1030009003607 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 1030009003608 non-specific DNA binding site [nucleotide binding]; other site 1030009003609 salt bridge; other site 1030009003610 sequence-specific DNA binding site [nucleotide binding]; other site 1030009003611 Protein of unknown function (DUF1250); Region: DUF1250; pfam06855 1030009003612 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 1030009003613 salt bridge; other site 1030009003614 non-specific DNA binding site [nucleotide binding]; other site 1030009003615 sequence-specific DNA binding site [nucleotide binding]; other site 1030009003616 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 1030009003617 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1030009003618 cofactor binding site; other site 1030009003619 DNA binding site [nucleotide binding] 1030009003620 substrate interaction site [chemical binding]; other site 1030009003621 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 1030009003622 YopX protein; Region: YopX; cl09859 1030009003623 hypothetical protein; Provisional; Region: PRK10220 1030009003624 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1030009003625 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1030009003626 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 1030009003627 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 1030009003628 AAA domain; Region: AAA_24; pfam13479 1030009003629 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1030009003630 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 1030009003631 putative Mg++ binding site [ion binding]; other site 1030009003632 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 1030009003633 nucleotide binding region [chemical binding]; other site 1030009003634 ATP-binding site [chemical binding]; other site 1030009003635 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1030009003636 Protein of unknown function (DUF669); Region: DUF669; pfam05037 1030009003637 Uncharacterized conserved protein [Function unknown]; Region: COG4983 1030009003638 Phage associated DNA primase [General function prediction only]; Region: COG3378 1030009003639 D5 N terminal like; Region: D5_N; pfam08706 1030009003640 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1030009003641 VRR-NUC domain; Region: VRR_NUC; pfam08774 1030009003642 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 1030009003643 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 1030009003644 Protein of unknown function (DUF722); Region: DUF722; pfam05263 1030009003645 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1030009003646 putative active site [active] 1030009003647 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1030009003648 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1030009003649 active site 1030009003650 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1030009003651 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1030009003652 Phage portal protein; Region: Phage_portal; pfam04860 1030009003653 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1030009003654 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1030009003655 oligomer interface [polypeptide binding]; other site 1030009003656 active site residues [active] 1030009003657 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 1030009003658 Phage capsid family; Region: Phage_capsid; pfam05065 1030009003659 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 1030009003660 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1030009003661 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 1030009003662 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1030009003663 catalytic residue [active] 1030009003664 Phage tail protein; Region: Sipho_tail; pfam05709 1030009003665 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 1030009003666 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 1030009003667 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1030009003668 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 1030009003669 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 1030009003670 Bacteriophage holin; Region: Phage_holin_1; pfam04531 1030009003671 Bacterial SH3 domain; Region: SH3_3; cl17532 1030009003672 Bacterial SH3 domain; Region: SH3_3; cl17532 1030009003673 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1030009003674 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1030009003675 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1030009003676 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009003677 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009003678 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1030009003679 Helix-turn-helix domain; Region: HTH_16; pfam12645 1030009003680 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 1030009003681 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1030009003682 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1030009003683 LRR adjacent; Region: LRR_adjacent; pfam08191 1030009003684 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009003685 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009003686 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009003687 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009003688 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009003689 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1030009003690 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1030009003691 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1030009003692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1030009003693 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1030009003694 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1030009003695 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 1030009003696 dimer interface [polypeptide binding]; other site 1030009003697 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 1030009003698 catalytic core [active] 1030009003699 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 1030009003700 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1030009003701 ATP binding site [chemical binding]; other site 1030009003702 Mg++ binding site [ion binding]; other site 1030009003703 motif III; other site 1030009003704 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 1030009003705 nucleotide binding region [chemical binding]; other site 1030009003706 ATP-binding site [chemical binding]; other site 1030009003707 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 1030009003708 RNA binding site [nucleotide binding]; other site 1030009003709 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 1030009003710 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 1030009003711 putative active site [active] 1030009003712 nucleotide binding site [chemical binding]; other site 1030009003713 nudix motif; other site 1030009003714 putative metal binding site [ion binding]; other site 1030009003715 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 1030009003716 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009003717 putative substrate translocation pore; other site 1030009003718 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009003719 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009003720 ligand binding site [chemical binding]; other site 1030009003721 flexible hinge region; other site 1030009003722 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1030009003723 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1030009003724 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1030009003725 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1030009003726 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1030009003727 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009003728 DNA-binding site [nucleotide binding]; DNA binding site 1030009003729 UTRA domain; Region: UTRA; pfam07702 1030009003730 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1030009003731 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 1030009003732 Ca binding site [ion binding]; other site 1030009003733 active site 1030009003734 catalytic site [active] 1030009003735 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 1030009003736 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 1030009003737 active site turn [active] 1030009003738 phosphorylation site [posttranslational modification] 1030009003739 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1030009003740 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_29; cd04688 1030009003741 nudix motif; other site 1030009003742 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1030009003743 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1030009003744 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1030009003745 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1030009003746 putative catalytic cysteine [active] 1030009003747 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1030009003748 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 1030009003749 nucleotide binding site [chemical binding]; other site 1030009003750 homotetrameric interface [polypeptide binding]; other site 1030009003751 putative phosphate binding site [ion binding]; other site 1030009003752 putative allosteric binding site; other site 1030009003753 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1030009003754 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 1030009003755 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1030009003756 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 1030009003757 non-specific DNA binding site [nucleotide binding]; other site 1030009003758 salt bridge; other site 1030009003759 sequence-specific DNA binding site [nucleotide binding]; other site 1030009003760 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 1030009003761 non-specific DNA binding site [nucleotide binding]; other site 1030009003762 salt bridge; other site 1030009003763 sequence-specific DNA binding site [nucleotide binding]; other site 1030009003764 trigger factor; Provisional; Region: tig; PRK01490 1030009003765 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1030009003766 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1030009003767 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1030009003768 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1030009003769 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 1030009003770 Walker A motif; other site 1030009003771 ATP binding site [chemical binding]; other site 1030009003772 Walker B motif; other site 1030009003773 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1030009003774 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1030009003775 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 1030009003776 Catalytic site [active] 1030009003777 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 1030009003778 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1030009003779 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 1030009003780 Catalytic site [active] 1030009003781 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1030009003782 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1030009003783 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 1030009003784 Catalytic site [active] 1030009003785 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 1030009003786 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1030009003787 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1030009003788 GTP/Mg2+ binding site [chemical binding]; other site 1030009003789 G4 box; other site 1030009003790 G5 box; other site 1030009003791 G1 box; other site 1030009003792 Switch I region; other site 1030009003793 G2 box; other site 1030009003794 G3 box; other site 1030009003795 Switch II region; other site 1030009003796 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1030009003797 RNA/DNA hybrid binding site [nucleotide binding]; other site 1030009003798 active site 1030009003799 DNA protecting protein DprA; Region: dprA; TIGR00732 1030009003800 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1030009003801 DNA topoisomerase I; Validated; Region: PRK05582 1030009003802 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 1030009003803 active site 1030009003804 interdomain interaction site; other site 1030009003805 putative metal-binding site [ion binding]; other site 1030009003806 nucleotide binding site [chemical binding]; other site 1030009003807 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 1030009003808 domain I; other site 1030009003809 DNA binding groove [nucleotide binding] 1030009003810 phosphate binding site [ion binding]; other site 1030009003811 domain II; other site 1030009003812 domain III; other site 1030009003813 nucleotide binding site [chemical binding]; other site 1030009003814 catalytic site [active] 1030009003815 domain IV; other site 1030009003816 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1030009003817 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1030009003818 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1030009003819 Glucose inhibited division protein A; Region: GIDA; pfam01134 1030009003820 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1030009003821 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 1030009003822 active site 1030009003823 DNA binding site [nucleotide binding] 1030009003824 Int/Topo IB signature motif; other site 1030009003825 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 1030009003826 active site 1030009003827 HslU subunit interaction site [polypeptide binding]; other site 1030009003828 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1030009003829 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 1030009003830 Walker A motif; other site 1030009003831 ATP binding site [chemical binding]; other site 1030009003832 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1030009003833 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1030009003834 transcriptional repressor CodY; Validated; Region: PRK04158 1030009003835 CodY GAF-like domain; Region: CodY; pfam06018 1030009003836 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1030009003837 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 1030009003838 active site 1030009003839 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1030009003840 active site 1030009003841 catalytic residues [active] 1030009003842 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1030009003843 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1030009003844 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1030009003845 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 1030009003846 Mg2+ binding site [ion binding]; other site 1030009003847 G-X-G motif; other site 1030009003848 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 1030009003849 anchoring element; other site 1030009003850 dimer interface [polypeptide binding]; other site 1030009003851 ATP binding site [chemical binding]; other site 1030009003852 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 1030009003853 active site 1030009003854 putative metal-binding site [ion binding]; other site 1030009003855 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1030009003856 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1030009003857 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 1030009003858 CAP-like domain; other site 1030009003859 active site 1030009003860 primary dimer interface [polypeptide binding]; other site 1030009003861 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1030009003862 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1030009003863 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1030009003864 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1030009003865 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009003866 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009003867 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009003868 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1030009003869 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 1030009003870 catalytic triad [active] 1030009003871 catalytic triad [active] 1030009003872 oxyanion hole [active] 1030009003873 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1030009003874 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1030009003875 active site 1030009003876 catalytic site [active] 1030009003877 metal binding site [ion binding]; metal-binding site 1030009003878 dimer interface [polypeptide binding]; other site 1030009003879 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1030009003880 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1030009003881 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1030009003882 bacterial Hfq-like; Region: Hfq; cd01716 1030009003883 hexamer interface [polypeptide binding]; other site 1030009003884 Sm1 motif; other site 1030009003885 RNA binding site [nucleotide binding]; other site 1030009003886 Sm2 motif; other site 1030009003887 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1030009003888 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1030009003889 HflX GTPase family; Region: HflX; cd01878 1030009003890 G1 box; other site 1030009003891 GTP/Mg2+ binding site [chemical binding]; other site 1030009003892 Switch I region; other site 1030009003893 G2 box; other site 1030009003894 G3 box; other site 1030009003895 Switch II region; other site 1030009003896 G4 box; other site 1030009003897 G5 box; other site 1030009003898 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1030009003899 Aluminium resistance protein; Region: Alum_res; pfam06838 1030009003900 glycophorin-binding protein; Provisional; Region: PTZ00131 1030009003901 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1030009003902 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1030009003903 DNA binding residues [nucleotide binding] 1030009003904 putative dimer interface [polypeptide binding]; other site 1030009003905 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1030009003906 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1030009003907 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1030009003908 arsenical pump membrane protein; Provisional; Region: PRK15445 1030009003909 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 1030009003910 transmembrane helices; other site 1030009003911 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1030009003912 LexA repressor; Validated; Region: PRK00215 1030009003913 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 1030009003914 putative DNA binding site [nucleotide binding]; other site 1030009003915 putative Zn2+ binding site [ion binding]; other site 1030009003916 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 1030009003917 Catalytic site [active] 1030009003918 cell division suppressor protein YneA; Provisional; Region: PRK14125 1030009003919 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1030009003920 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1030009003921 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1030009003922 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 1030009003923 TPP-binding site [chemical binding]; other site 1030009003924 dimer interface [polypeptide binding]; other site 1030009003925 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 1030009003926 PYR/PP interface [polypeptide binding]; other site 1030009003927 dimer interface [polypeptide binding]; other site 1030009003928 TPP binding site [chemical binding]; other site 1030009003929 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1030009003930 hypothetical protein; Provisional; Region: PRK01844 1030009003931 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 1030009003932 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 1030009003933 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1030009003934 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 1030009003935 S-adenosylmethionine binding site [chemical binding]; other site 1030009003936 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1030009003937 ParB-like nuclease domain; Region: ParBc; pfam02195 1030009003938 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1030009003939 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 1030009003940 Active Sites [active] 1030009003941 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1030009003942 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 1030009003943 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1030009003944 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1030009003945 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 1030009003946 putative nucleotide binding site [chemical binding]; other site 1030009003947 uridine monophosphate binding site [chemical binding]; other site 1030009003948 homohexameric interface [polypeptide binding]; other site 1030009003949 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1030009003950 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 1030009003951 hinge region; other site 1030009003952 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1030009003953 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 1030009003954 catalytic residue [active] 1030009003955 putative FPP diphosphate binding site; other site 1030009003956 putative FPP binding hydrophobic cleft; other site 1030009003957 dimer interface [polypeptide binding]; other site 1030009003958 putative IPP diphosphate binding site; other site 1030009003959 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1030009003960 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1030009003961 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 1030009003962 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1030009003963 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1030009003964 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1030009003965 RIP metalloprotease RseP; Region: TIGR00054 1030009003966 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 1030009003967 active site 1030009003968 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 1030009003969 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 1030009003970 protein binding site [polypeptide binding]; other site 1030009003971 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 1030009003972 putative substrate binding region [chemical binding]; other site 1030009003973 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1030009003974 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 1030009003975 dimer interface [polypeptide binding]; other site 1030009003976 motif 1; other site 1030009003977 active site 1030009003978 motif 2; other site 1030009003979 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 1030009003980 putative deacylase active site [active] 1030009003981 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 1030009003982 active site 1030009003983 motif 3; other site 1030009003984 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 1030009003985 anticodon binding site; other site 1030009003986 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1030009003987 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1030009003988 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 1030009003989 generic binding surface II; other site 1030009003990 generic binding surface I; other site 1030009003991 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1030009003992 active site 1030009003993 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1030009003994 active site 1030009003995 catalytic site [active] 1030009003996 substrate binding site [chemical binding]; other site 1030009003997 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1030009003998 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1030009003999 Sm and related proteins; Region: Sm_like; cl00259 1030009004000 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1030009004001 putative oligomer interface [polypeptide binding]; other site 1030009004002 putative RNA binding site [nucleotide binding]; other site 1030009004003 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1030009004004 NusA N-terminal domain; Region: NusA_N; pfam08529 1030009004005 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 1030009004006 RNA binding site [nucleotide binding]; other site 1030009004007 homodimer interface [polypeptide binding]; other site 1030009004008 NusA-like KH domain; Region: KH_5; pfam13184 1030009004009 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 1030009004010 G-X-X-G motif; other site 1030009004011 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 1030009004012 putative RNA binding cleft [nucleotide binding]; other site 1030009004013 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1030009004014 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1030009004015 translation initiation factor IF-2; Region: IF-2; TIGR00487 1030009004016 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1030009004017 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1030009004018 G1 box; other site 1030009004019 putative GEF interaction site [polypeptide binding]; other site 1030009004020 GTP/Mg2+ binding site [chemical binding]; other site 1030009004021 Switch I region; other site 1030009004022 G2 box; other site 1030009004023 G3 box; other site 1030009004024 Switch II region; other site 1030009004025 G4 box; other site 1030009004026 G5 box; other site 1030009004027 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 1030009004028 Translation-initiation factor 2; Region: IF-2; pfam11987 1030009004029 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 1030009004030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1550 1030009004031 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1030009004032 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 1030009004033 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1030009004034 RNA binding site [nucleotide binding]; other site 1030009004035 active site 1030009004036 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1030009004037 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1030009004038 active site 1030009004039 Riboflavin kinase; Region: Flavokinase; smart00904 1030009004040 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 1030009004041 16S/18S rRNA binding site [nucleotide binding]; other site 1030009004042 S13e-L30e interaction site [polypeptide binding]; other site 1030009004043 25S rRNA binding site [nucleotide binding]; other site 1030009004044 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1030009004045 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1030009004046 RNase E interface [polypeptide binding]; other site 1030009004047 trimer interface [polypeptide binding]; other site 1030009004048 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1030009004049 RNase E interface [polypeptide binding]; other site 1030009004050 trimer interface [polypeptide binding]; other site 1030009004051 active site 1030009004052 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 1030009004053 putative nucleic acid binding region [nucleotide binding]; other site 1030009004054 G-X-X-G motif; other site 1030009004055 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 1030009004056 RNA binding site [nucleotide binding]; other site 1030009004057 domain interface; other site 1030009004058 GTPase RsgA; Reviewed; Region: PRK01889 1030009004059 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 1030009004060 RNA binding site [nucleotide binding]; other site 1030009004061 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1030009004062 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1030009004063 GTP/Mg2+ binding site [chemical binding]; other site 1030009004064 G4 box; other site 1030009004065 G5 box; other site 1030009004066 G1 box; other site 1030009004067 Switch I region; other site 1030009004068 G2 box; other site 1030009004069 G3 box; other site 1030009004070 Switch II region; other site 1030009004071 YceG-like family; Region: YceG; pfam02618 1030009004072 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1030009004073 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1030009004074 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1030009004075 Rhomboid family; Region: Rhomboid; pfam01694 1030009004076 TPR repeat; Region: TPR_11; pfam13414 1030009004077 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 1030009004078 TPR motif; other site 1030009004079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4483 1030009004080 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1030009004081 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009004082 nucleotide binding site [chemical binding]; other site 1030009004083 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1030009004084 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1030009004085 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1030009004086 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1030009004087 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1030009004088 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1030009004089 Type II/IV secretion system protein; Region: T2SE; pfam00437 1030009004090 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 1030009004091 Walker A motif; other site 1030009004092 ATP binding site [chemical binding]; other site 1030009004093 Walker B motif; other site 1030009004094 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1030009004095 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1030009004096 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1030009004097 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 1030009004098 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 1030009004099 tetramer interface [polypeptide binding]; other site 1030009004100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009004101 catalytic residue [active] 1030009004102 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 1030009004103 tetramer interface [polypeptide binding]; other site 1030009004104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009004105 catalytic residue [active] 1030009004106 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 1030009004107 active site residue [active] 1030009004108 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 1030009004109 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1030009004110 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1030009004111 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 1030009004112 active site 1030009004113 elongation factor P; Validated; Region: PRK00529 1030009004114 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1030009004115 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 1030009004116 RNA binding site [nucleotide binding]; other site 1030009004117 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 1030009004118 RNA binding site [nucleotide binding]; other site 1030009004119 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1030009004120 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 1030009004121 carboxyltransferase (CT) interaction site; other site 1030009004122 biotinylation site [posttranslational modification]; other site 1030009004123 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1030009004124 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1030009004125 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1030009004126 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1030009004127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1030009004128 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 1030009004129 putative RNA binding site [nucleotide binding]; other site 1030009004130 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14170 1030009004131 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1030009004132 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1030009004133 homodimer interface [polypeptide binding]; other site 1030009004134 NADP binding site [chemical binding]; other site 1030009004135 substrate binding site [chemical binding]; other site 1030009004136 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1030009004137 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 1030009004138 generic binding surface II; other site 1030009004139 generic binding surface I; other site 1030009004140 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14064 1030009004141 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1030009004142 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1030009004143 substrate binding pocket [chemical binding]; other site 1030009004144 chain length determination region; other site 1030009004145 substrate-Mg2+ binding site; other site 1030009004146 catalytic residues [active] 1030009004147 aspartate-rich region 1; other site 1030009004148 active site lid residues [active] 1030009004149 aspartate-rich region 2; other site 1030009004150 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 1030009004151 DNA-binding site [nucleotide binding]; DNA binding site 1030009004152 RNA-binding motif; other site 1030009004153 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1030009004154 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 1030009004155 TPP-binding site; other site 1030009004156 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 1030009004157 PYR/PP interface [polypeptide binding]; other site 1030009004158 dimer interface [polypeptide binding]; other site 1030009004159 TPP binding site [chemical binding]; other site 1030009004160 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1030009004161 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1030009004162 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 1030009004163 RNA binding surface [nucleotide binding]; other site 1030009004164 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1030009004165 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1030009004166 arginine repressor; Provisional; Region: PRK04280 1030009004167 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1030009004168 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1030009004169 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1030009004170 Walker A/P-loop; other site 1030009004171 ATP binding site [chemical binding]; other site 1030009004172 Q-loop/lid; other site 1030009004173 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1030009004174 ABC transporter signature motif; other site 1030009004175 Walker B; other site 1030009004176 D-loop; other site 1030009004177 H-loop/switch region; other site 1030009004178 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1030009004179 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009004180 nucleotide binding site [chemical binding]; other site 1030009004181 Acetokinase family; Region: Acetate_kinase; cl17229 1030009004182 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1030009004183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009004184 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1030009004185 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1030009004186 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 1030009004187 tetramer interface [polypeptide binding]; other site 1030009004188 TPP-binding site [chemical binding]; other site 1030009004189 heterodimer interface [polypeptide binding]; other site 1030009004190 phosphorylation loop region [posttranslational modification] 1030009004191 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1030009004192 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 1030009004193 alpha subunit interface [polypeptide binding]; other site 1030009004194 TPP binding site [chemical binding]; other site 1030009004195 heterodimer interface [polypeptide binding]; other site 1030009004196 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1030009004197 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1030009004198 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 1030009004199 E3 interaction surface; other site 1030009004200 lipoyl attachment site [posttranslational modification]; other site 1030009004201 e3 binding domain; Region: E3_binding; pfam02817 1030009004202 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1030009004203 peptidase T-like protein; Region: PepT-like; TIGR01883 1030009004204 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1030009004205 metal binding site [ion binding]; metal-binding site 1030009004206 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1030009004207 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1030009004208 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1030009004209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009004210 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 1030009004211 active site 1030009004212 phosphorylation site [posttranslational modification] 1030009004213 intermolecular recognition site; other site 1030009004214 dimerization interface [polypeptide binding]; other site 1030009004215 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 1030009004216 DNA binding site [nucleotide binding] 1030009004217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1030009004218 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 1030009004219 dimerization interface [polypeptide binding]; other site 1030009004220 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 1030009004221 dimer interface [polypeptide binding]; other site 1030009004222 phosphorylation site [posttranslational modification] 1030009004223 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 1030009004224 ATP binding site [chemical binding]; other site 1030009004225 Mg2+ binding site [ion binding]; other site 1030009004226 G-X-G motif; other site 1030009004227 OxaA-like protein precursor; Validated; Region: PRK01622 1030009004228 acylphosphatase; Provisional; Region: PRK14443 1030009004229 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 1030009004230 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1030009004231 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 1030009004232 homotetramer interface [polypeptide binding]; other site 1030009004233 FMN binding site [chemical binding]; other site 1030009004234 homodimer contacts [polypeptide binding]; other site 1030009004235 putative active site [active] 1030009004236 putative substrate binding site [chemical binding]; other site 1030009004237 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1030009004238 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1030009004239 active site residue [active] 1030009004240 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1030009004241 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1030009004242 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1030009004243 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1030009004244 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1030009004245 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1030009004246 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1030009004247 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1030009004248 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06928 1030009004249 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1030009004250 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1030009004251 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 1030009004252 ligand binding site [chemical binding]; other site 1030009004253 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1030009004254 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1030009004255 Walker A/P-loop; other site 1030009004256 ATP binding site [chemical binding]; other site 1030009004257 Q-loop/lid; other site 1030009004258 ABC transporter signature motif; other site 1030009004259 Walker B; other site 1030009004260 D-loop; other site 1030009004261 H-loop/switch region; other site 1030009004262 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1030009004263 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1030009004264 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 1030009004265 TM-ABC transporter signature motif; other site 1030009004266 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1030009004267 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 1030009004268 TM-ABC transporter signature motif; other site 1030009004269 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1030009004270 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1030009004271 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1030009004272 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1030009004273 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1030009004274 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1030009004275 classical (c) SDRs; Region: SDR_c; cd05233 1030009004276 NAD(P) binding site [chemical binding]; other site 1030009004277 active site 1030009004278 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1030009004279 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 1030009004280 non-specific DNA binding site [nucleotide binding]; other site 1030009004281 salt bridge; other site 1030009004282 sequence-specific DNA binding site [nucleotide binding]; other site 1030009004283 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1030009004284 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1030009004285 competence damage-inducible protein A; Provisional; Region: PRK00549 1030009004286 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 1030009004287 putative MPT binding site; other site 1030009004288 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1030009004289 recombinase A; Provisional; Region: recA; PRK09354 1030009004290 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 1030009004291 hexamer interface [polypeptide binding]; other site 1030009004292 Walker A motif; other site 1030009004293 ATP binding site [chemical binding]; other site 1030009004294 Walker B motif; other site 1030009004295 phosphodiesterase; Provisional; Region: PRK12704 1030009004296 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009004297 Zn2+ binding site [ion binding]; other site 1030009004298 Mg2+ binding site [ion binding]; other site 1030009004299 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1030009004300 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009004301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1030009004302 Coenzyme A binding pocket [chemical binding]; other site 1030009004303 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1030009004304 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1030009004305 putative active site [active] 1030009004306 metal binding site [ion binding]; metal-binding site 1030009004307 homodimer binding site [polypeptide binding]; other site 1030009004308 Predicted membrane protein [Function unknown]; Region: COG4550 1030009004309 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1030009004310 MutS domain I; Region: MutS_I; pfam01624 1030009004311 MutS domain II; Region: MutS_II; pfam05188 1030009004312 MutS domain III; Region: MutS_III; pfam05192 1030009004313 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1030009004314 Walker A/P-loop; other site 1030009004315 ATP binding site [chemical binding]; other site 1030009004316 Q-loop/lid; other site 1030009004317 ABC transporter signature motif; other site 1030009004318 Walker B; other site 1030009004319 D-loop; other site 1030009004320 H-loop/switch region; other site 1030009004321 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1030009004322 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 1030009004323 ATP binding site [chemical binding]; other site 1030009004324 Mg2+ binding site [ion binding]; other site 1030009004325 G-X-G motif; other site 1030009004326 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 1030009004327 ATP binding site [chemical binding]; other site 1030009004328 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1030009004329 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 1030009004330 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1030009004331 Pyruvate formate lyase 1; Region: PFL1; cd01678 1030009004332 coenzyme A binding site [chemical binding]; other site 1030009004333 active site 1030009004334 catalytic residues [active] 1030009004335 glycine loop; other site 1030009004336 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1030009004337 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 1030009004338 FeS/SAM binding site; other site 1030009004339 Predicted transcriptional regulators [Transcription]; Region: COG1695 1030009004340 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1030009004341 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 1030009004342 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009004343 putative substrate translocation pore; other site 1030009004344 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 1030009004345 non-specific DNA binding site [nucleotide binding]; other site 1030009004346 salt bridge; other site 1030009004347 sequence-specific DNA binding site [nucleotide binding]; other site 1030009004348 topology modulation protein; Reviewed; Region: PRK08118 1030009004349 AAA domain; Region: AAA_17; pfam13207 1030009004350 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009004351 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009004352 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009004353 putative acyltransferase; Provisional; Region: PRK05790 1030009004354 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 1030009004355 dimer interface [polypeptide binding]; other site 1030009004356 active site 1030009004357 "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 1030009004358 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1030009004359 dimer interface [polypeptide binding]; other site 1030009004360 active site 1030009004361 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 1030009004362 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1030009004363 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 1030009004364 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1030009004365 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1030009004366 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1030009004367 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1030009004368 FAD binding domain; Region: FAD_binding_4; pfam01565 1030009004369 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1030009004370 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1030009004371 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1030009004372 Walker A/P-loop; other site 1030009004373 ATP binding site [chemical binding]; other site 1030009004374 Q-loop/lid; other site 1030009004375 ABC transporter signature motif; other site 1030009004376 Walker B; other site 1030009004377 D-loop; other site 1030009004378 H-loop/switch region; other site 1030009004379 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 1030009004380 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 1030009004381 dimer interface [polypeptide binding]; other site 1030009004382 conserved gate region; other site 1030009004383 ABC-ATPase subunit interface; other site 1030009004384 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1030009004385 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1030009004386 manganese transport protein MntH; Reviewed; Region: PRK00701 1030009004387 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1030009004388 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 1030009004389 dimer interface [polypeptide binding]; other site 1030009004390 conserved gate region; other site 1030009004391 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 1030009004392 ABC-ATPase subunit interface; other site 1030009004393 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1030009004394 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1030009004395 dimerization interface [polypeptide binding]; other site 1030009004396 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 1030009004397 dimer interface [polypeptide binding]; other site 1030009004398 conserved gate region; other site 1030009004399 putative PBP binding loops; other site 1030009004400 ABC-ATPase subunit interface; other site 1030009004401 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1030009004402 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 1030009004403 Walker A/P-loop; other site 1030009004404 ATP binding site [chemical binding]; other site 1030009004405 Q-loop/lid; other site 1030009004406 ABC transporter signature motif; other site 1030009004407 Walker B; other site 1030009004408 D-loop; other site 1030009004409 H-loop/switch region; other site 1030009004410 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 1030009004411 Predicted membrane protein [Function unknown]; Region: COG3859 1030009004412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1030009004413 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1030009004414 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009004415 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009004416 ABC transporter; Region: ABC_tran_2; pfam12848 1030009004417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009004418 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1030009004419 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1030009004420 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1030009004421 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009004422 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1030009004423 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1030009004424 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1030009004425 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1030009004426 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1030009004427 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1030009004428 dimer interface [polypeptide binding]; other site 1030009004429 active site 1030009004430 catalytic residue [active] 1030009004431 aspartate kinase I; Reviewed; Region: PRK08210 1030009004432 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 1030009004433 nucleotide binding site [chemical binding]; other site 1030009004434 substrate binding site [chemical binding]; other site 1030009004435 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 1030009004436 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1030009004437 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1030009004438 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1030009004439 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1030009004440 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1030009004441 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1030009004442 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1030009004443 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1030009004444 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1030009004445 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 1030009004446 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1030009004447 Predicted membrane protein [Function unknown]; Region: COG4392 1030009004448 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1030009004449 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1030009004450 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1030009004451 metal binding site 2 [ion binding]; metal-binding site 1030009004452 putative DNA binding helix; other site 1030009004453 metal binding site 1 [ion binding]; metal-binding site 1030009004454 dimer interface [polypeptide binding]; other site 1030009004455 structural Zn2+ binding site [ion binding]; other site 1030009004456 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1030009004457 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 1030009004458 ABC-ATPase subunit interface; other site 1030009004459 dimer interface [polypeptide binding]; other site 1030009004460 putative PBP binding regions; other site 1030009004461 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1030009004462 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1030009004463 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1030009004464 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 1030009004465 DHHA2 domain; Region: DHHA2; pfam02833 1030009004466 endonuclease IV; Provisional; Region: PRK01060 1030009004467 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 1030009004468 AP (apurinic/apyrimidinic) site pocket; other site 1030009004469 DNA interaction; other site 1030009004470 Metal-binding active site; metal-binding site 1030009004471 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 1030009004472 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1030009004473 ATP binding site [chemical binding]; other site 1030009004474 Mg++ binding site [ion binding]; other site 1030009004475 motif III; other site 1030009004476 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 1030009004477 nucleotide binding region [chemical binding]; other site 1030009004478 ATP-binding site [chemical binding]; other site 1030009004479 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1030009004480 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1030009004481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1030009004482 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1030009004483 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1030009004484 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1030009004485 Family of unknown function (DUF633); Region: DUF633; pfam04816 1030009004486 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1030009004487 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1030009004488 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1030009004489 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1030009004490 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1030009004491 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 1030009004492 DNA binding residues [nucleotide binding] 1030009004493 DNA primase; Validated; Region: dnaG; PRK05667 1030009004494 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1030009004495 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1030009004496 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 1030009004497 active site 1030009004498 metal binding site [ion binding]; metal-binding site 1030009004499 interdomain interaction site; other site 1030009004500 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1030009004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1030009004502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1030009004503 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1030009004504 DALR anticodon binding domain; Region: DALR_1; pfam05746 1030009004505 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 1030009004506 dimer interface [polypeptide binding]; other site 1030009004507 motif 1; other site 1030009004508 active site 1030009004509 motif 2; other site 1030009004510 motif 3; other site 1030009004511 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1030009004512 Recombination protein O N terminal; Region: RecO_N; pfam11967 1030009004513 Recombination protein O C terminal; Region: RecO_C; pfam02565 1030009004514 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1030009004515 GTPase Era; Reviewed; Region: era; PRK00089 1030009004516 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1030009004517 G1 box; other site 1030009004518 GTP/Mg2+ binding site [chemical binding]; other site 1030009004519 Switch I region; other site 1030009004520 G2 box; other site 1030009004521 Switch II region; other site 1030009004522 G3 box; other site 1030009004523 G4 box; other site 1030009004524 G5 box; other site 1030009004525 KH domain; Region: KH_2; pfam07650 1030009004526 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 1030009004527 active site 1030009004528 catalytic motif [active] 1030009004529 Zn binding site [ion binding]; other site 1030009004530 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1030009004531 metal-binding heat shock protein; Provisional; Region: PRK00016 1030009004532 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1030009004533 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1030009004534 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009004535 Zn2+ binding site [ion binding]; other site 1030009004536 Mg2+ binding site [ion binding]; other site 1030009004537 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1030009004538 PhoH-like protein; Region: PhoH; pfam02562 1030009004539 Yqey-like protein; Region: YqeY; pfam09424 1030009004540 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1030009004541 RNA methyltransferase, RsmE family; Region: TIGR00046 1030009004542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1030009004543 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1030009004544 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 1030009004545 S-adenosylmethionine binding site [chemical binding]; other site 1030009004546 chaperone protein DnaJ; Provisional; Region: PRK14280 1030009004547 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 1030009004548 HSP70 interaction site [polypeptide binding]; other site 1030009004549 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1030009004550 substrate binding site [polypeptide binding]; other site 1030009004551 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1030009004552 Zn binding sites [ion binding]; other site 1030009004553 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1030009004554 dimer interface [polypeptide binding]; other site 1030009004555 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1030009004556 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1030009004557 nucleotide binding site [chemical binding]; other site 1030009004558 NEF interaction site [polypeptide binding]; other site 1030009004559 SBD interface [polypeptide binding]; other site 1030009004560 heat shock protein GrpE; Provisional; Region: PRK14140 1030009004561 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 1030009004562 dimer interface [polypeptide binding]; other site 1030009004563 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1030009004564 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1030009004565 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1030009004566 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1030009004567 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 1030009004568 FeS/SAM binding site; other site 1030009004569 HemN C-terminal domain; Region: HemN_C; pfam06969 1030009004570 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1030009004571 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 1030009004572 NADP binding site [chemical binding]; other site 1030009004573 putative substrate binding site [chemical binding]; other site 1030009004574 active site 1030009004575 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009004576 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009004577 DNA binding residues [nucleotide binding] 1030009004578 putative dimer interface [polypeptide binding]; other site 1030009004579 GTP-binding protein LepA; Provisional; Region: PRK05433 1030009004580 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1030009004581 G1 box; other site 1030009004582 putative GEF interaction site [polypeptide binding]; other site 1030009004583 GTP/Mg2+ binding site [chemical binding]; other site 1030009004584 Switch I region; other site 1030009004585 G2 box; other site 1030009004586 G3 box; other site 1030009004587 Switch II region; other site 1030009004588 G4 box; other site 1030009004589 G5 box; other site 1030009004590 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 1030009004591 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 1030009004592 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1030009004593 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1030009004594 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1030009004595 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1030009004596 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1030009004597 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1030009004598 Competence protein; Region: Competence; pfam03772 1030009004599 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1030009004600 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 1030009004601 catalytic motif [active] 1030009004602 Zn binding site [ion binding]; other site 1030009004603 SLBB domain; Region: SLBB; pfam10531 1030009004604 comEA protein; Region: comE; TIGR01259 1030009004605 Helix-hairpin-helix motif; Region: HHH; pfam00633 1030009004606 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1030009004607 DNA binding site [nucleotide binding] 1030009004608 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1030009004609 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 1030009004610 S-adenosylmethionine binding site [chemical binding]; other site 1030009004611 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1030009004612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009004613 Zn2+ binding site [ion binding]; other site 1030009004614 Mg2+ binding site [ion binding]; other site 1030009004615 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1030009004616 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1030009004617 active site 1030009004618 (T/H)XGH motif; other site 1030009004619 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1030009004620 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1030009004621 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1030009004622 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1030009004623 shikimate binding site; other site 1030009004624 NAD(P) binding site [chemical binding]; other site 1030009004625 GTPase YqeH; Provisional; Region: PRK13796 1030009004626 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1030009004627 GTP/Mg2+ binding site [chemical binding]; other site 1030009004628 G4 box; other site 1030009004629 G5 box; other site 1030009004630 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1030009004631 G1 box; other site 1030009004632 G1 box; other site 1030009004633 GTP/Mg2+ binding site [chemical binding]; other site 1030009004634 G2 box; other site 1030009004635 Switch I region; other site 1030009004636 G2 box; other site 1030009004637 Switch I region; other site 1030009004638 G3 box; other site 1030009004639 G3 box; other site 1030009004640 Switch II region; other site 1030009004641 Switch II region; other site 1030009004642 G4 box; other site 1030009004643 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1030009004644 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 1030009004645 motif II; other site 1030009004646 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1030009004647 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 1030009004648 active site 1030009004649 Zn binding site [ion binding]; other site 1030009004650 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1030009004651 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1030009004652 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 1030009004653 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1030009004654 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1030009004655 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1030009004656 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1030009004657 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 1030009004658 Sugar specificity; other site 1030009004659 Pyrimidine base specificity; other site 1030009004660 ATP-binding site [chemical binding]; other site 1030009004661 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1030009004662 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 1030009004663 S-adenosylmethionine binding site [chemical binding]; other site 1030009004664 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1030009004665 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1030009004666 dimerization interface [polypeptide binding]; other site 1030009004667 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1030009004668 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1030009004669 hypothetical protein; Provisional; Region: PRK13678 1030009004670 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1030009004671 hypothetical protein; Provisional; Region: PRK05473 1030009004672 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1030009004673 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 1030009004674 motif 1; other site 1030009004675 active site 1030009004676 motif 2; other site 1030009004677 motif 3; other site 1030009004678 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1030009004679 DHHA1 domain; Region: DHHA1; pfam02272 1030009004680 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009004681 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009004682 Walker A/P-loop; other site 1030009004683 ATP binding site [chemical binding]; other site 1030009004684 Q-loop/lid; other site 1030009004685 ABC transporter signature motif; other site 1030009004686 Walker B; other site 1030009004687 D-loop; other site 1030009004688 H-loop/switch region; other site 1030009004689 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1030009004690 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1030009004691 FtsX-like permease family; Region: FtsX; pfam02687 1030009004692 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009004693 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 1030009004694 active site 1030009004695 phosphorylation site [posttranslational modification] 1030009004696 intermolecular recognition site; other site 1030009004697 dimerization interface [polypeptide binding]; other site 1030009004698 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 1030009004699 DNA binding site [nucleotide binding] 1030009004700 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1030009004701 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 1030009004702 dimerization interface [polypeptide binding]; other site 1030009004703 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 1030009004704 dimer interface [polypeptide binding]; other site 1030009004705 phosphorylation site [posttranslational modification] 1030009004706 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 1030009004707 ATP binding site [chemical binding]; other site 1030009004708 Mg2+ binding site [ion binding]; other site 1030009004709 G-X-G motif; other site 1030009004710 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1030009004711 AAA domain; Region: AAA_30; pfam13604 1030009004712 Family description; Region: UvrD_C_2; pfam13538 1030009004713 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 1030009004714 binding surface 1030009004715 TPR motif; other site 1030009004716 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1030009004717 TPR repeat; Region: TPR_11; pfam13414 1030009004718 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 1030009004719 binding surface 1030009004720 TPR motif; other site 1030009004721 TPR repeat; Region: TPR_11; pfam13414 1030009004722 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1030009004723 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1030009004724 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 1030009004725 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1030009004726 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1030009004727 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1030009004728 catalytic residue [active] 1030009004729 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 1030009004730 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 1030009004731 Walker A motif; other site 1030009004732 ATP binding site [chemical binding]; other site 1030009004733 Walker B motif; other site 1030009004734 arginine finger; other site 1030009004735 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1030009004736 Predicted transcriptional regulator [Transcription]; Region: COG1959 1030009004737 Transcriptional regulator; Region: Rrf2; pfam02082 1030009004738 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1030009004739 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1030009004740 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1030009004741 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1030009004742 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 1030009004743 dimer interface [polypeptide binding]; other site 1030009004744 anticodon binding site; other site 1030009004745 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 1030009004746 homodimer interface [polypeptide binding]; other site 1030009004747 motif 1; other site 1030009004748 active site 1030009004749 motif 2; other site 1030009004750 GAD domain; Region: GAD; pfam02938 1030009004751 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 1030009004752 motif 3; other site 1030009004753 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1030009004754 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 1030009004755 dimer interface [polypeptide binding]; other site 1030009004756 motif 1; other site 1030009004757 active site 1030009004758 motif 2; other site 1030009004759 motif 3; other site 1030009004760 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 1030009004761 anticodon binding site; other site 1030009004762 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1030009004763 Bacterial SH3 domain; Region: SH3_3; pfam08239 1030009004764 Bacterial SH3 domain; Region: SH3_3; pfam08239 1030009004765 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1030009004766 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1030009004767 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 1030009004768 active site 1030009004769 metal binding site [ion binding]; metal-binding site 1030009004770 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 1030009004771 putative active site [active] 1030009004772 dimerization interface [polypeptide binding]; other site 1030009004773 putative tRNAtyr binding site [nucleotide binding]; other site 1030009004774 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1030009004775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009004776 Zn2+ binding site [ion binding]; other site 1030009004777 Mg2+ binding site [ion binding]; other site 1030009004778 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1030009004779 synthetase active site [active] 1030009004780 NTP binding site [chemical binding]; other site 1030009004781 metal binding site [ion binding]; metal-binding site 1030009004782 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 1030009004783 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1030009004784 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009004785 active site 1030009004786 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1030009004787 DHH family; Region: DHH; pfam01368 1030009004788 DHHA1 domain; Region: DHHA1; pfam02272 1030009004789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 1030009004790 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 1030009004791 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1030009004792 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1030009004793 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1030009004794 Protein export membrane protein; Region: SecD_SecF; pfam02355 1030009004795 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 1030009004796 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1030009004797 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1030009004798 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1030009004799 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1030009004800 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1030009004801 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1030009004802 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 1030009004803 Walker A motif; other site 1030009004804 ATP binding site [chemical binding]; other site 1030009004805 Walker B motif; other site 1030009004806 arginine finger; other site 1030009004807 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1030009004808 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 1030009004809 RuvA N terminal domain; Region: RuvA_N; pfam01330 1030009004810 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1030009004811 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1030009004812 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009004813 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1030009004814 NAD binding site [chemical binding]; other site 1030009004815 dimer interface [polypeptide binding]; other site 1030009004816 substrate binding site [chemical binding]; other site 1030009004817 hypothetical protein; Validated; Region: PRK00110 1030009004818 prephenate dehydratase; Provisional; Region: PRK11898 1030009004819 Prephenate dehydratase; Region: PDT; pfam00800 1030009004820 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 1030009004821 putative L-Phe binding site [chemical binding]; other site 1030009004822 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1030009004823 GTP1/OBG; Region: GTP1_OBG; pfam01018 1030009004824 Obg GTPase; Region: Obg; cd01898 1030009004825 G1 box; other site 1030009004826 GTP/Mg2+ binding site [chemical binding]; other site 1030009004827 Switch I region; other site 1030009004828 G2 box; other site 1030009004829 G3 box; other site 1030009004830 Switch II region; other site 1030009004831 G4 box; other site 1030009004832 G5 box; other site 1030009004833 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1030009004834 glycerol kinase; Provisional; Region: glpK; PRK00047 1030009004835 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1030009004836 N- and C-terminal domain interface [polypeptide binding]; other site 1030009004837 active site 1030009004838 MgATP binding site [chemical binding]; other site 1030009004839 catalytic site [active] 1030009004840 metal binding site [ion binding]; metal-binding site 1030009004841 glycerol binding site [chemical binding]; other site 1030009004842 homotetramer interface [polypeptide binding]; other site 1030009004843 homodimer interface [polypeptide binding]; other site 1030009004844 FBP binding site [chemical binding]; other site 1030009004845 protein IIAGlc interface [polypeptide binding]; other site 1030009004846 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 1030009004847 amphipathic channel; other site 1030009004848 Asn-Pro-Ala signature motifs; other site 1030009004849 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1030009004850 hypothetical protein; Provisional; Region: PRK14553 1030009004851 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1030009004852 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1030009004853 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 1030009004854 homodimer interface [polypeptide binding]; other site 1030009004855 oligonucleotide binding site [chemical binding]; other site 1030009004856 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1030009004857 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 1030009004858 Switch I; other site 1030009004859 Switch II; other site 1030009004860 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1030009004861 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1030009004862 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1030009004863 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1030009004864 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1030009004865 rod shape-determining protein MreC; Region: MreC; pfam04085 1030009004866 rod shape-determining protein MreB; Provisional; Region: PRK13927 1030009004867 MreB and similar proteins; Region: MreB_like; cd10225 1030009004868 nucleotide binding site [chemical binding]; other site 1030009004869 Mg binding site [ion binding]; other site 1030009004870 putative protofilament interaction site [polypeptide binding]; other site 1030009004871 RodZ interaction site [polypeptide binding]; other site 1030009004872 hypothetical protein; Reviewed; Region: PRK00024 1030009004873 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1030009004874 MPN+ (JAMM) motif; other site 1030009004875 Zinc-binding site [ion binding]; other site 1030009004876 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 1030009004877 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1030009004878 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1030009004879 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1030009004880 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1030009004881 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1030009004882 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1030009004883 active site 1030009004884 HIGH motif; other site 1030009004885 nucleotide binding site [chemical binding]; other site 1030009004886 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1030009004887 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1030009004888 active site 1030009004889 KMSKS motif; other site 1030009004890 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1030009004891 tRNA binding surface [nucleotide binding]; other site 1030009004892 anticodon binding site; other site 1030009004893 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1030009004894 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1030009004895 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 1030009004896 inhibitor-cofactor binding pocket; inhibition site 1030009004897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009004898 catalytic residue [active] 1030009004899 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 1030009004900 dimer interface [polypeptide binding]; other site 1030009004901 active site 1030009004902 Schiff base residues; other site 1030009004903 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1030009004904 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 1030009004905 active site 1030009004906 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1030009004907 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 1030009004908 domain interfaces; other site 1030009004909 active site 1030009004910 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1030009004911 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1030009004912 tRNA; other site 1030009004913 putative tRNA binding site [nucleotide binding]; other site 1030009004914 putative NADP binding site [chemical binding]; other site 1030009004915 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1030009004916 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1030009004917 G1 box; other site 1030009004918 GTP/Mg2+ binding site [chemical binding]; other site 1030009004919 Switch I region; other site 1030009004920 G2 box; other site 1030009004921 G3 box; other site 1030009004922 Switch II region; other site 1030009004923 G4 box; other site 1030009004924 G5 box; other site 1030009004925 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1030009004926 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 1030009004927 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1030009004928 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 1030009004929 active site 1030009004930 dimer interface [polypeptide binding]; other site 1030009004931 motif 1; other site 1030009004932 motif 2; other site 1030009004933 motif 3; other site 1030009004934 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 1030009004935 anticodon binding site; other site 1030009004936 primosomal protein DnaI; Reviewed; Region: PRK08939 1030009004937 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1030009004938 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1030009004939 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1030009004940 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1030009004941 ATP cone domain; Region: ATP-cone; pfam03477 1030009004942 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1030009004943 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 1030009004944 CoA-binding site [chemical binding]; other site 1030009004945 ATP-binding [chemical binding]; other site 1030009004946 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1030009004947 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1030009004948 DNA binding site [nucleotide binding] 1030009004949 catalytic residue [active] 1030009004950 H2TH interface [polypeptide binding]; other site 1030009004951 putative catalytic residues [active] 1030009004952 turnover-facilitating residue; other site 1030009004953 intercalation triad [nucleotide binding]; other site 1030009004954 8OG recognition residue [nucleotide binding]; other site 1030009004955 putative reading head residues; other site 1030009004956 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1030009004957 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1030009004958 DNA polymerase I; Provisional; Region: PRK05755 1030009004959 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1030009004960 active site 1030009004961 metal binding site 1 [ion binding]; metal-binding site 1030009004962 putative 5' ssDNA interaction site; other site 1030009004963 metal binding site 3; metal-binding site 1030009004964 metal binding site 2 [ion binding]; metal-binding site 1030009004965 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1030009004966 putative DNA binding site [nucleotide binding]; other site 1030009004967 putative metal binding site [ion binding]; other site 1030009004968 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 1030009004969 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1030009004970 active site 1030009004971 DNA binding site [nucleotide binding] 1030009004972 catalytic site [active] 1030009004973 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1030009004974 isocitrate dehydrogenase; Validated; Region: PRK07362 1030009004975 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 1030009004976 dimer interface [polypeptide binding]; other site 1030009004977 Citrate synthase; Region: Citrate_synt; pfam00285 1030009004978 active site 1030009004979 citrylCoA binding site [chemical binding]; other site 1030009004980 oxalacetate/citrate binding site [chemical binding]; other site 1030009004981 coenzyme A binding site [chemical binding]; other site 1030009004982 catalytic triad [active] 1030009004983 Protein of unknown function (DUF441); Region: DUF441; pfam04284 1030009004984 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1030009004985 pyruvate kinase; Provisional; Region: PRK06354 1030009004986 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 1030009004987 domain interfaces; other site 1030009004988 active site 1030009004989 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1030009004990 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 1030009004991 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1030009004992 active site 1030009004993 ADP/pyrophosphate binding site [chemical binding]; other site 1030009004994 dimerization interface [polypeptide binding]; other site 1030009004995 allosteric effector site; other site 1030009004996 fructose-1,6-bisphosphate binding site; other site 1030009004997 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1030009004998 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1030009004999 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1030009005000 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 1030009005001 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1030009005002 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 1030009005003 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1030009005004 active site 1030009005005 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 1030009005006 generic binding surface I; other site 1030009005007 generic binding surface II; other site 1030009005008 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1030009005009 DHH family; Region: DHH; pfam01368 1030009005010 DHHA1 domain; Region: DHHA1; pfam02272 1030009005011 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1030009005012 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1030009005013 DNA-binding site [nucleotide binding]; DNA binding site 1030009005014 DRTGG domain; Region: DRTGG; pfam07085 1030009005015 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 1030009005016 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 1030009005017 active site 2 [active] 1030009005018 active site 1 [active] 1030009005019 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1030009005020 metal-dependent hydrolase; Provisional; Region: PRK00685 1030009005021 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1030009005022 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1030009005023 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 1030009005024 active site 1030009005025 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1030009005026 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1030009005027 hexamer interface [polypeptide binding]; other site 1030009005028 ligand binding site [chemical binding]; other site 1030009005029 putative active site [active] 1030009005030 NAD(P) binding site [chemical binding]; other site 1030009005031 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 1030009005032 Ligand Binding Site [chemical binding]; other site 1030009005033 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1030009005034 propionate/acetate kinase; Provisional; Region: PRK12379 1030009005035 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1030009005036 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 1030009005037 S-adenosylmethionine binding site [chemical binding]; other site 1030009005038 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1030009005039 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1030009005040 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1030009005041 classical (c) SDRs; Region: SDR_c; cd05233 1030009005042 NAD(P) binding site [chemical binding]; other site 1030009005043 active site 1030009005044 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009005045 DNA binding residues [nucleotide binding] 1030009005046 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009005047 putative dimer interface [polypeptide binding]; other site 1030009005048 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1030009005049 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 1030009005050 putative catalytic residues [active] 1030009005051 catalytic nucleophile [active] 1030009005052 Recombinase; Region: Recombinase; pfam07508 1030009005053 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1030009005054 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1030009005055 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 1030009005056 dimer interface [polypeptide binding]; other site 1030009005057 catalytic triad [active] 1030009005058 peroxidatic and resolving cysteines [active] 1030009005059 RDD family; Region: RDD; pfam06271 1030009005060 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1030009005061 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1030009005062 tandem repeat interface [polypeptide binding]; other site 1030009005063 oligomer interface [polypeptide binding]; other site 1030009005064 active site residues [active] 1030009005065 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 1030009005066 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1030009005067 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1030009005068 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1030009005069 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1030009005070 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 1030009005071 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 1030009005072 inhibitor-cofactor binding pocket; inhibition site 1030009005073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009005074 catalytic residue [active] 1030009005075 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 1030009005076 nucleotide binding site [chemical binding]; other site 1030009005077 N-acetyl-L-glutamate binding site [chemical binding]; other site 1030009005078 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 1030009005079 heterotetramer interface [polypeptide binding]; other site 1030009005080 active site pocket [active] 1030009005081 cleavage site 1030009005082 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 1030009005083 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1030009005084 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1030009005085 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1030009005086 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 1030009005087 Ligand Binding Site [chemical binding]; other site 1030009005088 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1030009005089 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1030009005090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1030009005091 catalytic residue [active] 1030009005092 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 1030009005093 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1030009005094 GAF domain; Region: GAF_2; pfam13185 1030009005095 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1030009005096 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1030009005097 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 1030009005098 RNA binding surface [nucleotide binding]; other site 1030009005099 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 1030009005100 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1030009005101 active site 1030009005102 HIGH motif; other site 1030009005103 dimer interface [polypeptide binding]; other site 1030009005104 KMSKS motif; other site 1030009005105 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 1030009005106 RNA binding surface [nucleotide binding]; other site 1030009005107 catabolite control protein A; Region: ccpA; TIGR01481 1030009005108 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009005109 DNA binding site [nucleotide binding] 1030009005110 domain linker motif; other site 1030009005111 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 1030009005112 dimerization interface [polypeptide binding]; other site 1030009005113 effector binding site; other site 1030009005114 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 1030009005115 Chorismate mutase type II; Region: CM_2; cl00693 1030009005116 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1030009005117 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 1030009005118 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1030009005119 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1030009005120 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1030009005121 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1030009005122 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 1030009005123 dimer interface [polypeptide binding]; other site 1030009005124 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1030009005125 catalytic triad [active] 1030009005126 peroxidatic and resolving cysteines [active] 1030009005127 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1030009005128 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1030009005129 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1030009005130 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1030009005131 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1030009005132 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1030009005133 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1030009005134 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 1030009005135 putative tRNA-binding site [nucleotide binding]; other site 1030009005136 hypothetical protein; Provisional; Region: PRK13668 1030009005137 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 1030009005138 catalytic residues [active] 1030009005139 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 1030009005140 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1030009005141 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1030009005142 oligomer interface [polypeptide binding]; other site 1030009005143 active site 1030009005144 metal binding site [ion binding]; metal-binding site 1030009005145 Predicted small secreted protein [Function unknown]; Region: COG5584 1030009005146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1937 1030009005147 putative homodimer interface [polypeptide binding]; other site 1030009005148 putative homotetramer interface [polypeptide binding]; other site 1030009005149 putative allosteric switch controlling residues; other site 1030009005150 putative metal binding site [ion binding]; other site 1030009005151 putative homodimer-homodimer interface [polypeptide binding]; other site 1030009005152 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1030009005153 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 1030009005154 S-adenosylmethionine binding site [chemical binding]; other site 1030009005155 Phosphotransferase enzyme family; Region: APH; pfam01636 1030009005156 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 1030009005157 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1030009005158 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 1030009005159 putative substrate translocation pore; other site 1030009005160 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 1030009005161 MarR family; Region: MarR; pfam01047 1030009005162 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1030009005163 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 1030009005164 homodimer interface [polypeptide binding]; other site 1030009005165 substrate-cofactor binding pocket; other site 1030009005166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009005167 catalytic residue [active] 1030009005168 dipeptidase PepV; Reviewed; Region: PRK07318 1030009005169 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1030009005170 active site 1030009005171 metal binding site [ion binding]; metal-binding site 1030009005172 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 1030009005173 nudix motif; other site 1030009005174 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 1030009005175 putative substrate binding site [chemical binding]; other site 1030009005176 putative ATP binding site [chemical binding]; other site 1030009005177 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1030009005178 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 1030009005179 active site 1030009005180 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1030009005181 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1030009005182 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1030009005183 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 1030009005184 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1030009005185 substrate binding site [chemical binding]; other site 1030009005186 active site 1030009005187 catalytic residues [active] 1030009005188 heterodimer interface [polypeptide binding]; other site 1030009005189 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1030009005190 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 1030009005191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009005192 catalytic residue [active] 1030009005193 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 1030009005194 active site 1030009005195 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 1030009005196 active site 1030009005197 ribulose/triose binding site [chemical binding]; other site 1030009005198 phosphate binding site [ion binding]; other site 1030009005199 substrate (anthranilate) binding pocket [chemical binding]; other site 1030009005200 product (indole) binding pocket [chemical binding]; other site 1030009005201 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1030009005202 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1030009005203 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1030009005204 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1030009005205 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1030009005206 glutamine binding [chemical binding]; other site 1030009005207 catalytic triad [active] 1030009005208 anthranilate synthase component I; Provisional; Region: PRK13570 1030009005209 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1030009005210 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1030009005211 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1030009005212 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1030009005213 putative catalytic cysteine [active] 1030009005214 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1030009005215 putative active site [active] 1030009005216 metal binding site [ion binding]; metal-binding site 1030009005217 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 1030009005218 dimer interface [polypeptide binding]; other site 1030009005219 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1030009005220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009005221 Walker A/P-loop; other site 1030009005222 ATP binding site [chemical binding]; other site 1030009005223 Q-loop/lid; other site 1030009005224 ABC transporter signature motif; other site 1030009005225 Walker B; other site 1030009005226 D-loop; other site 1030009005227 H-loop/switch region; other site 1030009005228 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1030009005229 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1030009005230 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1030009005231 putative dimer interface [polypeptide binding]; other site 1030009005232 catalytic triad [active] 1030009005233 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1030009005234 aconitate hydratase; Validated; Region: PRK09277 1030009005235 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1030009005236 substrate binding site [chemical binding]; other site 1030009005237 ligand binding site [chemical binding]; other site 1030009005238 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 1030009005239 substrate binding site [chemical binding]; other site 1030009005240 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 1030009005241 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1030009005242 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1030009005243 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 1030009005244 ATP binding site [chemical binding]; other site 1030009005245 putative Mg++ binding site [ion binding]; other site 1030009005246 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 1030009005247 nucleotide binding region [chemical binding]; other site 1030009005248 ATP-binding site [chemical binding]; other site 1030009005249 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1030009005250 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1030009005251 Walker A/P-loop; other site 1030009005252 ATP binding site [chemical binding]; other site 1030009005253 Q-loop/lid; other site 1030009005254 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1030009005255 ABC transporter signature motif; other site 1030009005256 Walker B; other site 1030009005257 D-loop; other site 1030009005258 H-loop/switch region; other site 1030009005259 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1030009005260 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1030009005261 active site 1030009005262 metal binding site [ion binding]; metal-binding site 1030009005263 DNA binding site [nucleotide binding] 1030009005264 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1030009005265 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1030009005266 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1030009005267 putative acyl-acceptor binding pocket; other site 1030009005268 Membrane protein involved in cytochrome C biogenesis [Posttranslational modification, protein turnover, chaperones]; Region: CcdC; COG4846 1030009005269 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009005270 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009005271 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1030009005272 Walker A/P-loop; other site 1030009005273 ATP binding site [chemical binding]; other site 1030009005274 Q-loop/lid; other site 1030009005275 ABC transporter signature motif; other site 1030009005276 Walker B; other site 1030009005277 D-loop; other site 1030009005278 H-loop/switch region; other site 1030009005279 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009005280 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1030009005281 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009005282 Walker A/P-loop; other site 1030009005283 ATP binding site [chemical binding]; other site 1030009005284 Q-loop/lid; other site 1030009005285 ABC transporter signature motif; other site 1030009005286 Walker B; other site 1030009005287 D-loop; other site 1030009005288 H-loop/switch region; other site 1030009005289 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 1030009005290 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 1030009005291 active site 1030009005292 active site 1030009005293 elongation factor Ts; Provisional; Region: tsf; PRK09377 1030009005294 UBA/TS-N domain; Region: UBA; pfam00627 1030009005295 Elongation factor TS; Region: EF_TS; pfam00889 1030009005296 Elongation factor TS; Region: EF_TS; pfam00889 1030009005297 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 1030009005298 rRNA interaction site [nucleotide binding]; other site 1030009005299 S8 interaction site; other site 1030009005300 putative laminin-1 binding site; other site 1030009005301 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1030009005302 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1030009005303 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1030009005304 HIGH motif; other site 1030009005305 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1030009005306 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1030009005307 active site 1030009005308 KMSKS motif; other site 1030009005309 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1030009005310 tRNA binding surface [nucleotide binding]; other site 1030009005311 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1030009005312 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 1030009005313 FeS/SAM binding site; other site 1030009005314 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 1030009005315 S-adenosylmethionine binding site [chemical binding]; other site 1030009005316 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1030009005317 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 1030009005318 active site 1030009005319 dimer interface [polypeptide binding]; other site 1030009005320 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 1030009005321 Ligand Binding Site [chemical binding]; other site 1030009005322 Molecular Tunnel; other site 1030009005323 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1030009005324 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1030009005325 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1030009005326 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1030009005327 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1030009005328 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009005329 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1030009005330 NAD binding site [chemical binding]; other site 1030009005331 dimer interface [polypeptide binding]; other site 1030009005332 substrate binding site [chemical binding]; other site 1030009005333 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 1030009005334 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 1030009005335 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 1030009005336 nudix motif; other site 1030009005337 Uncharacterized conserved protein [Function unknown]; Region: COG0759 1030009005338 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1030009005339 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 1030009005340 metal binding site [ion binding]; metal-binding site 1030009005341 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 1030009005342 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1030009005343 acyl-activating enzyme (AAE) consensus motif; other site 1030009005344 putative AMP binding site [chemical binding]; other site 1030009005345 putative active site [active] 1030009005346 putative CoA binding site [chemical binding]; other site 1030009005347 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 1030009005348 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1030009005349 substrate binding site [chemical binding]; other site 1030009005350 oxyanion hole (OAH) forming residues; other site 1030009005351 trimer interface [polypeptide binding]; other site 1030009005352 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1030009005353 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1030009005354 TAP-like protein; Region: Abhydrolase_4; pfam08386 1030009005355 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 1030009005356 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 1030009005357 dimer interface [polypeptide binding]; other site 1030009005358 tetramer interface [polypeptide binding]; other site 1030009005359 PYR/PP interface [polypeptide binding]; other site 1030009005360 TPP binding site [chemical binding]; other site 1030009005361 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 1030009005362 TPP-binding site; other site 1030009005363 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1030009005364 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1030009005365 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1030009005366 UbiA prenyltransferase family; Region: UbiA; pfam01040 1030009005367 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 1030009005368 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1030009005369 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 1030009005370 FAD binding site [chemical binding]; other site 1030009005371 cystathionine beta-lyase; Provisional; Region: PRK08064 1030009005372 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 1030009005373 homodimer interface [polypeptide binding]; other site 1030009005374 substrate-cofactor binding pocket; other site 1030009005375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009005376 catalytic residue [active] 1030009005377 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1030009005378 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 1030009005379 homodimer interface [polypeptide binding]; other site 1030009005380 substrate-cofactor binding pocket; other site 1030009005381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009005382 catalytic residue [active] 1030009005383 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1030009005384 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 1030009005385 THF binding site; other site 1030009005386 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 1030009005387 substrate binding site [chemical binding]; other site 1030009005388 THF binding site; other site 1030009005389 zinc-binding site [ion binding]; other site 1030009005390 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 1030009005391 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009005392 putative substrate translocation pore; other site 1030009005393 ferric uptake regulator; Provisional; Region: fur; PRK09462 1030009005394 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1030009005395 metal binding site 2 [ion binding]; metal-binding site 1030009005396 putative DNA binding helix; other site 1030009005397 metal binding site 1 [ion binding]; metal-binding site 1030009005398 dimer interface [polypeptide binding]; other site 1030009005399 structural Zn2+ binding site [ion binding]; other site 1030009005400 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1030009005401 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1030009005402 NAD binding site [chemical binding]; other site 1030009005403 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 1030009005404 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 1030009005405 inhibitor-cofactor binding pocket; inhibition site 1030009005406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009005407 catalytic residue [active] 1030009005408 Predicted membrane protein [Function unknown]; Region: COG4129 1030009005409 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1030009005410 hypothetical protein; Provisional; Region: PRK13662 1030009005411 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 1030009005412 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1030009005413 putative NAD(P) binding site [chemical binding]; other site 1030009005414 active site 1030009005415 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1030009005416 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1030009005417 minor groove reading motif; other site 1030009005418 helix-hairpin-helix signature motif; other site 1030009005419 substrate binding pocket [chemical binding]; other site 1030009005420 active site 1030009005421 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1030009005422 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 1030009005423 DNA binding and oxoG recognition site [nucleotide binding] 1030009005424 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 1030009005425 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1030009005426 trimer interface [polypeptide binding]; other site 1030009005427 active site 1030009005428 WVELL protein; Region: WVELL; pfam14043 1030009005429 recombination regulator RecX; Provisional; Region: recX; PRK14135 1030009005430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1030009005431 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1030009005432 NAD(P) binding site [chemical binding]; other site 1030009005433 active site 1030009005434 Predicted integral membrane protein [Function unknown]; Region: COG0392 1030009005435 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1030009005436 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1030009005437 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 1030009005438 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1030009005439 Cation efflux family; Region: Cation_efflux; pfam01545 1030009005440 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1030009005441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1030009005442 PAS fold; Region: PAS_4; pfam08448 1030009005443 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 1030009005444 putative active site [active] 1030009005445 heme pocket [chemical binding]; other site 1030009005446 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1030009005447 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1030009005448 dimer interface [polypeptide binding]; other site 1030009005449 putative CheW interface [polypeptide binding]; other site 1030009005450 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1030009005451 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 1030009005452 dimer interface [polypeptide binding]; other site 1030009005453 active site 1030009005454 Mn binding site [ion binding]; other site 1030009005455 TRAM domain; Region: TRAM; cl01282 1030009005456 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1030009005457 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 1030009005458 S-adenosylmethionine binding site [chemical binding]; other site 1030009005459 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1030009005460 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1030009005461 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 1030009005462 Substrate-binding site [chemical binding]; other site 1030009005463 Substrate specificity [chemical binding]; other site 1030009005464 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1030009005465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4840 1030009005466 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 1030009005467 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 1030009005468 active site 1030009005469 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1030009005470 flavodoxin, short chain; Region: flav_short; TIGR01753 1030009005471 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1030009005472 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1030009005473 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 1030009005474 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009005475 putative substrate translocation pore; other site 1030009005476 rod-share determining protein MreBH; Provisional; Region: PRK13929 1030009005477 MreB and similar proteins; Region: MreB_like; cd10225 1030009005478 nucleotide binding site [chemical binding]; other site 1030009005479 Mg binding site [ion binding]; other site 1030009005480 putative protofilament interaction site [polypeptide binding]; other site 1030009005481 RodZ interaction site [polypeptide binding]; other site 1030009005482 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1030009005483 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 1030009005484 S-adenosylmethionine binding site [chemical binding]; other site 1030009005485 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009005486 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009005487 Uncharacterized conserved protein [Function unknown]; Region: COG4748 1030009005488 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1030009005489 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1030009005490 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1030009005491 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 1030009005492 methionine cluster; other site 1030009005493 active site 1030009005494 phosphorylation site [posttranslational modification] 1030009005495 metal binding site [ion binding]; metal-binding site 1030009005496 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 1030009005497 active site 1030009005498 P-loop; other site 1030009005499 phosphorylation site [posttranslational modification] 1030009005500 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1030009005501 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1030009005502 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 1030009005503 Walker A motif; other site 1030009005504 ATP binding site [chemical binding]; other site 1030009005505 Walker B motif; other site 1030009005506 arginine finger; other site 1030009005507 Transcriptional antiterminator [Transcription]; Region: COG3933 1030009005508 PRD domain; Region: PRD; pfam00874 1030009005509 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 1030009005510 active pocket/dimerization site; other site 1030009005511 active site 1030009005512 phosphorylation site [posttranslational modification] 1030009005513 PRD domain; Region: PRD; pfam00874 1030009005514 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1030009005515 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 1030009005516 ATP binding site [chemical binding]; other site 1030009005517 putative Mg++ binding site [ion binding]; other site 1030009005518 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 1030009005519 nucleotide binding region [chemical binding]; other site 1030009005520 ATP-binding site [chemical binding]; other site 1030009005521 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1030009005522 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009005523 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009005524 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009005525 DNA binding site [nucleotide binding] 1030009005526 domain linker motif; other site 1030009005527 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 1030009005528 dimerization interface [polypeptide binding]; other site 1030009005529 ligand binding site [chemical binding]; other site 1030009005530 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1030009005531 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1030009005532 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1030009005533 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1030009005534 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1030009005535 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1030009005536 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 1030009005537 dimer interface [polypeptide binding]; other site 1030009005538 conserved gate region; other site 1030009005539 putative PBP binding loops; other site 1030009005540 ABC-ATPase subunit interface; other site 1030009005541 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1030009005542 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 1030009005543 dimer interface [polypeptide binding]; other site 1030009005544 conserved gate region; other site 1030009005545 putative PBP binding loops; other site 1030009005546 ABC-ATPase subunit interface; other site 1030009005547 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1030009005548 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1030009005549 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1030009005550 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 1030009005551 active site 1030009005552 dimer interface [polypeptide binding]; other site 1030009005553 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1030009005554 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 1030009005555 active site 1030009005556 FMN binding site [chemical binding]; other site 1030009005557 substrate binding site [chemical binding]; other site 1030009005558 3Fe-4S cluster binding site [ion binding]; other site 1030009005559 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 1030009005560 domain interface; other site 1030009005561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1030009005562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1030009005563 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 1030009005564 putative dimerization interface [polypeptide binding]; other site 1030009005565 Predicted acetyltransferase [General function prediction only]; Region: COG3153 1030009005566 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1030009005567 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1030009005568 putative active site [active] 1030009005569 metal binding site [ion binding]; metal-binding site 1030009005570 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1030009005571 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 1030009005572 substrate binding pocket [chemical binding]; other site 1030009005573 membrane-bound complex binding site; other site 1030009005574 hinge residues; other site 1030009005575 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009005576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009005577 Walker A/P-loop; other site 1030009005578 ATP binding site [chemical binding]; other site 1030009005579 Q-loop/lid; other site 1030009005580 ABC transporter signature motif; other site 1030009005581 Walker B; other site 1030009005582 D-loop; other site 1030009005583 H-loop/switch region; other site 1030009005584 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 1030009005585 dimer interface [polypeptide binding]; other site 1030009005586 conserved gate region; other site 1030009005587 putative PBP binding loops; other site 1030009005588 ABC-ATPase subunit interface; other site 1030009005589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1030009005590 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 1030009005591 dimer interface [polypeptide binding]; other site 1030009005592 phosphorylation site [posttranslational modification] 1030009005593 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 1030009005594 ATP binding site [chemical binding]; other site 1030009005595 Mg2+ binding site [ion binding]; other site 1030009005596 G-X-G motif; other site 1030009005597 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1030009005598 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 1030009005599 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 1030009005600 active site 1030009005601 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1030009005602 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 1030009005603 putative NAD(P) binding site [chemical binding]; other site 1030009005604 active site 1030009005605 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009005606 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 1030009005607 active site 1030009005608 phosphorylation site [posttranslational modification] 1030009005609 intermolecular recognition site; other site 1030009005610 dimerization interface [polypeptide binding]; other site 1030009005611 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 1030009005612 DNA binding site [nucleotide binding] 1030009005613 FtsX-like permease family; Region: FtsX; pfam02687 1030009005614 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1030009005615 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009005616 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009005617 Walker A/P-loop; other site 1030009005618 ATP binding site [chemical binding]; other site 1030009005619 Q-loop/lid; other site 1030009005620 ABC transporter signature motif; other site 1030009005621 Walker B; other site 1030009005622 D-loop; other site 1030009005623 H-loop/switch region; other site 1030009005624 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1030009005625 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 1030009005626 ADP binding site [chemical binding]; other site 1030009005627 magnesium binding site [ion binding]; other site 1030009005628 putative shikimate binding site; other site 1030009005629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 1030009005630 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1030009005631 TRAM domain; Region: TRAM; pfam01938 1030009005632 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 1030009005633 S-adenosylmethionine binding site [chemical binding]; other site 1030009005634 putative lipid kinase; Reviewed; Region: PRK13337 1030009005635 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1030009005636 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1030009005637 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1030009005638 GatB domain; Region: GatB_Yqey; pfam02637 1030009005639 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1030009005640 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1030009005641 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1030009005642 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 1030009005643 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 1030009005644 putative dimer interface [polypeptide binding]; other site 1030009005645 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 1030009005646 putative dimer interface [polypeptide binding]; other site 1030009005647 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1030009005648 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 1030009005649 nucleotide binding pocket [chemical binding]; other site 1030009005650 K-X-D-G motif; other site 1030009005651 catalytic site [active] 1030009005652 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1030009005653 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 1030009005654 Dimer interface [polypeptide binding]; other site 1030009005655 BRCT sequence motif; other site 1030009005656 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1030009005657 Part of AAA domain; Region: AAA_19; pfam13245 1030009005658 Family description; Region: UvrD_C_2; pfam13538 1030009005659 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 1030009005660 PcrB family; Region: PcrB; pfam01884 1030009005661 substrate binding site [chemical binding]; other site 1030009005662 putative active site [active] 1030009005663 dimer interface [polypeptide binding]; other site 1030009005664 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1030009005665 Na2 binding site [ion binding]; other site 1030009005666 putative substrate binding site 1 [chemical binding]; other site 1030009005667 Na binding site 1 [ion binding]; other site 1030009005668 putative substrate binding site 2 [chemical binding]; other site 1030009005669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 1030009005670 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1030009005671 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1030009005672 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1030009005673 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1030009005674 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1030009005675 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 1030009005676 purine monophosphate binding site [chemical binding]; other site 1030009005677 dimer interface [polypeptide binding]; other site 1030009005678 putative catalytic residues [active] 1030009005679 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1030009005680 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1030009005681 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1030009005682 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1030009005683 active site 1030009005684 substrate binding site [chemical binding]; other site 1030009005685 cosubstrate binding site; other site 1030009005686 catalytic site [active] 1030009005687 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1030009005688 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 1030009005689 dimerization interface [polypeptide binding]; other site 1030009005690 putative ATP binding site [chemical binding]; other site 1030009005691 amidophosphoribosyltransferase; Provisional; Region: PRK06781 1030009005692 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 1030009005693 active site 1030009005694 tetramer interface [polypeptide binding]; other site 1030009005695 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009005696 active site 1030009005697 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1030009005698 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 1030009005699 dimerization interface [polypeptide binding]; other site 1030009005700 ATP binding site [chemical binding]; other site 1030009005701 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 1030009005702 dimerization interface [polypeptide binding]; other site 1030009005703 ATP binding site [chemical binding]; other site 1030009005704 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1030009005705 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1030009005706 putative active site [active] 1030009005707 catalytic triad [active] 1030009005708 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1030009005709 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1030009005710 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1030009005711 ATP binding site [chemical binding]; other site 1030009005712 active site 1030009005713 substrate binding site [chemical binding]; other site 1030009005714 adenylosuccinate lyase; Provisional; Region: PRK07492 1030009005715 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1030009005716 tetramer interface [polypeptide binding]; other site 1030009005717 active site 1030009005718 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1030009005719 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1030009005720 NAD binding site [chemical binding]; other site 1030009005721 ATP-grasp domain; Region: ATP-grasp; pfam02222 1030009005722 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1030009005723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 1030009005724 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1030009005725 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1030009005726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009005727 Zn2+ binding site [ion binding]; other site 1030009005728 Mg2+ binding site [ion binding]; other site 1030009005729 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1030009005730 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1030009005731 Walker A/P-loop; other site 1030009005732 ATP binding site [chemical binding]; other site 1030009005733 Q-loop/lid; other site 1030009005734 ABC transporter signature motif; other site 1030009005735 Walker B; other site 1030009005736 D-loop; other site 1030009005737 H-loop/switch region; other site 1030009005738 peptidase T; Region: peptidase-T; TIGR01882 1030009005739 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1030009005740 metal binding site [ion binding]; metal-binding site 1030009005741 dimer interface [polypeptide binding]; other site 1030009005742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 1030009005743 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1030009005744 active site 1030009005745 putative catalytic site [active] 1030009005746 DNA binding site [nucleotide binding] 1030009005747 putative phosphate binding site [ion binding]; other site 1030009005748 metal binding site A [ion binding]; metal-binding site 1030009005749 AP binding site [nucleotide binding]; other site 1030009005750 metal binding site B [ion binding]; metal-binding site 1030009005751 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1030009005752 23S rRNA binding site [nucleotide binding]; other site 1030009005753 L21 binding site [polypeptide binding]; other site 1030009005754 L13 binding site [polypeptide binding]; other site 1030009005755 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1030009005756 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1030009005757 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1030009005758 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1030009005759 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1030009005760 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1030009005761 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 1030009005762 active site 1030009005763 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1030009005764 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1030009005765 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1030009005766 DNA binding residues [nucleotide binding] 1030009005767 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1030009005768 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1030009005769 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1030009005770 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 1030009005771 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1030009005772 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1030009005773 RimM N-terminal domain; Region: RimM; pfam01782 1030009005774 PRC-barrel domain; Region: PRC; pfam05239 1030009005775 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 1030009005776 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1030009005777 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1030009005778 catalytic triad [active] 1030009005779 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1030009005780 KH domain; Region: KH_4; pfam13083 1030009005781 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1030009005782 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1030009005783 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1030009005784 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1030009005785 signal recognition particle protein; Provisional; Region: PRK10867 1030009005786 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1030009005787 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 1030009005788 P loop; other site 1030009005789 GTP binding site [chemical binding]; other site 1030009005790 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1030009005791 putative DNA-binding protein; Validated; Region: PRK00118 1030009005792 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1030009005793 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1030009005794 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1030009005795 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 1030009005796 P loop; other site 1030009005797 GTP binding site [chemical binding]; other site 1030009005798 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1030009005799 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1030009005800 Walker A/P-loop; other site 1030009005801 ATP binding site [chemical binding]; other site 1030009005802 Q-loop/lid; other site 1030009005803 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1030009005804 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 1030009005805 linker region; other site 1030009005806 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1030009005807 ABC transporter signature motif; other site 1030009005808 Walker B; other site 1030009005809 D-loop; other site 1030009005810 H-loop/switch region; other site 1030009005811 ribonuclease III; Reviewed; Region: rnc; PRK00102 1030009005812 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 1030009005813 dimerization interface [polypeptide binding]; other site 1030009005814 active site 1030009005815 metal binding site [ion binding]; metal-binding site 1030009005816 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 1030009005817 dsRNA binding site [nucleotide binding]; other site 1030009005818 acyl carrier protein; Provisional; Region: acpP; PRK00982 1030009005819 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1030009005820 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1030009005821 NAD(P) binding site [chemical binding]; other site 1030009005822 homotetramer interface [polypeptide binding]; other site 1030009005823 homodimer interface [polypeptide binding]; other site 1030009005824 active site 1030009005825 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1030009005826 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1030009005827 putative phosphate acyltransferase; Provisional; Region: PRK05331 1030009005828 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 1030009005829 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 1030009005830 active site 2 [active] 1030009005831 active site 1 [active] 1030009005832 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1030009005833 Y-family of DNA polymerases; Region: PolY; cl12025 1030009005834 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 1030009005835 generic binding surface II; other site 1030009005836 ssDNA binding site; other site 1030009005837 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 1030009005838 ATP binding site [chemical binding]; other site 1030009005839 putative Mg++ binding site [ion binding]; other site 1030009005840 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 1030009005841 nucleotide binding region [chemical binding]; other site 1030009005842 ATP-binding site [chemical binding]; other site 1030009005843 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1030009005844 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1030009005845 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1030009005846 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1030009005847 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1030009005848 putative L-serine binding site [chemical binding]; other site 1030009005849 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1030009005850 DAK2 domain; Region: Dak2; pfam02734 1030009005851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1030009005852 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1030009005853 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1030009005854 Thiamine pyrophosphokinase; Region: TPK; cd07995 1030009005855 active site 1030009005856 dimerization interface [polypeptide binding]; other site 1030009005857 thiamine binding site [chemical binding]; other site 1030009005858 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1030009005859 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 1030009005860 substrate binding site [chemical binding]; other site 1030009005861 hexamer interface [polypeptide binding]; other site 1030009005862 metal binding site [ion binding]; metal-binding site 1030009005863 GTPase RsgA; Reviewed; Region: PRK00098 1030009005864 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 1030009005865 RNA binding site [nucleotide binding]; other site 1030009005866 homodimer interface [polypeptide binding]; other site 1030009005867 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1030009005868 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1030009005869 GTP/Mg2+ binding site [chemical binding]; other site 1030009005870 G4 box; other site 1030009005871 G1 box; other site 1030009005872 Switch I region; other site 1030009005873 G2 box; other site 1030009005874 G3 box; other site 1030009005875 Switch II region; other site 1030009005876 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1030009005877 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1030009005878 active site 1030009005879 ATP binding site [chemical binding]; other site 1030009005880 substrate binding site [chemical binding]; other site 1030009005881 activation loop (A-loop); other site 1030009005882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1030009005883 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 1030009005884 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 1030009005885 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 1030009005886 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 1030009005887 Protein phosphatase 2C; Region: PP2C; pfam00481 1030009005888 active site 1030009005889 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1030009005890 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 1030009005891 putative RNA binding site [nucleotide binding]; other site 1030009005892 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 1030009005893 S-adenosylmethionine binding site [chemical binding]; other site 1030009005894 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1030009005895 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1030009005896 putative active site [active] 1030009005897 substrate binding site [chemical binding]; other site 1030009005898 putative cosubstrate binding site; other site 1030009005899 catalytic site [active] 1030009005900 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1030009005901 substrate binding site [chemical binding]; other site 1030009005902 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1030009005903 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 1030009005904 ATP binding site [chemical binding]; other site 1030009005905 putative Mg++ binding site [ion binding]; other site 1030009005906 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 1030009005907 ATP-binding site [chemical binding]; other site 1030009005908 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1030009005909 Flavoprotein; Region: Flavoprotein; pfam02441 1030009005910 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1030009005911 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1030009005912 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1030009005913 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 1030009005914 catalytic site [active] 1030009005915 G-X2-G-X-G-K; other site 1030009005916 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 1030009005917 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1030009005918 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1030009005919 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1030009005920 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1030009005921 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1030009005922 putative NAD(P) binding site [chemical binding]; other site 1030009005923 homodimer interface [polypeptide binding]; other site 1030009005924 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009005925 active site 1030009005926 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 1030009005927 active site 1030009005928 dimer interface [polypeptide binding]; other site 1030009005929 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1030009005930 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 1030009005931 heterodimer interface [polypeptide binding]; other site 1030009005932 active site 1030009005933 FMN binding site [chemical binding]; other site 1030009005934 homodimer interface [polypeptide binding]; other site 1030009005935 substrate binding site [chemical binding]; other site 1030009005936 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1030009005937 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 1030009005938 FAD binding pocket [chemical binding]; other site 1030009005939 FAD binding motif [chemical binding]; other site 1030009005940 phosphate binding motif [ion binding]; other site 1030009005941 beta-alpha-beta structure motif; other site 1030009005942 NAD binding pocket [chemical binding]; other site 1030009005943 Iron coordination center [ion binding]; other site 1030009005944 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1030009005945 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1030009005946 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1030009005947 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1030009005948 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1030009005949 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1030009005950 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 1030009005951 IMP binding site; other site 1030009005952 dimer interface [polypeptide binding]; other site 1030009005953 interdomain contacts; other site 1030009005954 partial ornithine binding site; other site 1030009005955 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1030009005956 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1030009005957 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1030009005958 catalytic site [active] 1030009005959 subunit interface [polypeptide binding]; other site 1030009005960 dihydroorotase; Validated; Region: pyrC; PRK09357 1030009005961 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 1030009005962 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 1030009005963 active site 1030009005964 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1030009005965 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1030009005966 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1030009005967 uracil transporter; Provisional; Region: PRK10720 1030009005968 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1030009005969 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009005970 active site 1030009005971 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 1030009005972 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1030009005973 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 1030009005974 RNA binding surface [nucleotide binding]; other site 1030009005975 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1030009005976 active site 1030009005977 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1030009005978 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1030009005979 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1030009005980 multidrug efflux protein; Reviewed; Region: PRK01766 1030009005981 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1030009005982 cation binding site [ion binding]; other site 1030009005983 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1030009005984 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 1030009005985 metal binding site [ion binding]; metal-binding site 1030009005986 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1030009005987 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 1030009005988 ABC-ATPase subunit interface; other site 1030009005989 dimer interface [polypeptide binding]; other site 1030009005990 putative PBP binding regions; other site 1030009005991 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1030009005992 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1030009005993 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1030009005994 MarR family; Region: MarR; pfam01047 1030009005995 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1030009005996 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1030009005997 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 1030009005998 protein binding site [polypeptide binding]; other site 1030009005999 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1030009006000 Catalytic dyad [active] 1030009006001 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1030009006002 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 1030009006003 metal-binding site [ion binding] 1030009006004 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1030009006005 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 1030009006006 metal-binding site [ion binding] 1030009006007 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1030009006008 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 1030009006009 motif II; other site 1030009006010 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 1030009006011 putative homodimer interface [polypeptide binding]; other site 1030009006012 putative homotetramer interface [polypeptide binding]; other site 1030009006013 putative allosteric switch controlling residues; other site 1030009006014 putative metal binding site [ion binding]; other site 1030009006015 putative homodimer-homodimer interface [polypeptide binding]; other site 1030009006016 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1030009006017 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1030009006018 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1030009006019 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1030009006020 hypothetical protein; Provisional; Region: PRK13672 1030009006021 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1030009006022 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009006023 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1030009006024 SelR domain; Region: SelR; pfam01641 1030009006025 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1030009006026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4698 1030009006027 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 1030009006028 active site 1030009006029 catalytic triad [active] 1030009006030 oxyanion hole [active] 1030009006031 EDD domain protein, DegV family; Region: DegV; TIGR00762 1030009006032 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1030009006033 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1030009006034 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1030009006035 HTH domain; Region: HTH_11; pfam08279 1030009006036 FOG: CBS domain [General function prediction only]; Region: COG0517 1030009006037 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 1030009006038 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1030009006039 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1030009006040 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1030009006041 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1030009006042 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1030009006043 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009006044 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 1030009006045 Predicted membrane protein [Function unknown]; Region: COG4129 1030009006046 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1030009006047 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 1030009006048 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1030009006049 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1030009006050 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 1030009006051 active site 1030009006052 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1030009006053 substrate binding site [chemical binding]; other site 1030009006054 metal binding site [ion binding]; metal-binding site 1030009006055 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1030009006056 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1030009006057 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1030009006058 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 1030009006059 folate binding site [chemical binding]; other site 1030009006060 NADP+ binding site [chemical binding]; other site 1030009006061 thymidylate synthase; Region: thym_sym; TIGR03284 1030009006062 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 1030009006063 dimerization interface [polypeptide binding]; other site 1030009006064 active site 1030009006065 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1030009006066 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1030009006067 Walker A/P-loop; other site 1030009006068 ATP binding site [chemical binding]; other site 1030009006069 Q-loop/lid; other site 1030009006070 ABC transporter signature motif; other site 1030009006071 Walker B; other site 1030009006072 D-loop; other site 1030009006073 H-loop/switch region; other site 1030009006074 ABC transporter; Region: ABC_tran_2; pfam12848 1030009006075 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009006076 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1030009006077 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 1030009006078 Potassium binding sites [ion binding]; other site 1030009006079 Cesium cation binding sites [ion binding]; other site 1030009006080 manganese transport transcriptional regulator; Provisional; Region: PRK03902 1030009006081 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1030009006082 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1030009006083 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 1030009006084 DNA-binding site [nucleotide binding]; DNA binding site 1030009006085 RNA-binding motif; other site 1030009006086 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1030009006087 RNA/DNA hybrid binding site [nucleotide binding]; other site 1030009006088 active site 1030009006089 5'-3' exonuclease; Region: 53EXOc; smart00475 1030009006090 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1030009006091 active site 1030009006092 metal binding site 1 [ion binding]; metal-binding site 1030009006093 putative 5' ssDNA interaction site; other site 1030009006094 metal binding site 3; metal-binding site 1030009006095 metal binding site 2 [ion binding]; metal-binding site 1030009006096 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1030009006097 putative DNA binding site [nucleotide binding]; other site 1030009006098 putative metal binding site [ion binding]; other site 1030009006099 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1030009006100 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 1030009006101 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 1030009006102 putative active site [active] 1030009006103 xanthine permease; Region: pbuX; TIGR03173 1030009006104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009006105 active site 1030009006106 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1030009006107 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1030009006108 active site 1030009006109 Zn binding site [ion binding]; other site 1030009006110 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1030009006111 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1030009006112 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 1030009006113 cell division protein GpsB; Provisional; Region: PRK14127 1030009006114 DivIVA domain; Region: DivI1A_domain; TIGR03544 1030009006115 Interactor of ZYG-11; Region: ZYG-11_interact; pfam05884 1030009006116 hypothetical protein; Provisional; Region: PRK13660 1030009006117 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 1030009006118 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1030009006119 Transglycosylase; Region: Transgly; pfam00912 1030009006120 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1030009006121 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1030009006122 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1030009006123 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1030009006124 minor groove reading motif; other site 1030009006125 helix-hairpin-helix signature motif; other site 1030009006126 substrate binding pocket [chemical binding]; other site 1030009006127 active site 1030009006128 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1030009006129 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1030009006130 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1030009006131 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1030009006132 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 1030009006133 putative dimer interface [polypeptide binding]; other site 1030009006134 putative anticodon binding site; other site 1030009006135 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 1030009006136 homodimer interface [polypeptide binding]; other site 1030009006137 motif 1; other site 1030009006138 motif 2; other site 1030009006139 active site 1030009006140 motif 3; other site 1030009006141 aspartate aminotransferase; Provisional; Region: PRK05764 1030009006142 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 1030009006143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009006144 homodimer interface [polypeptide binding]; other site 1030009006145 catalytic residue [active] 1030009006146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1030009006147 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1030009006148 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 1030009006149 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1030009006150 active site 1030009006151 catalytic site [active] 1030009006152 substrate binding site [chemical binding]; other site 1030009006153 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1030009006154 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 1030009006155 putative Mg++ binding site [ion binding]; other site 1030009006156 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1030009006157 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1030009006158 tetramerization interface [polypeptide binding]; other site 1030009006159 active site 1030009006160 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1030009006161 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1030009006162 active site 1030009006163 ATP-binding site [chemical binding]; other site 1030009006164 pantoate-binding site; other site 1030009006165 HXXH motif; other site 1030009006166 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 1030009006167 active site 1030009006168 oligomerization interface [polypeptide binding]; other site 1030009006169 metal binding site [ion binding]; metal-binding site 1030009006170 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 1030009006171 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1030009006172 catalytic residues [active] 1030009006173 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1030009006174 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1030009006175 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1030009006176 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1030009006177 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1030009006178 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1030009006179 active site 1030009006180 NTP binding site [chemical binding]; other site 1030009006181 metal binding triad [ion binding]; metal-binding site 1030009006182 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1030009006183 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1030009006184 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 1030009006185 active site 1030009006186 dimer interfaces [polypeptide binding]; other site 1030009006187 catalytic residues [active] 1030009006188 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1030009006189 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1030009006190 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1030009006191 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 1030009006192 homodimer interface [polypeptide binding]; other site 1030009006193 metal binding site [ion binding]; metal-binding site 1030009006194 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1030009006195 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1030009006196 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1030009006197 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1030009006198 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1030009006199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1030009006200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1030009006201 metal binding site [ion binding]; metal-binding site 1030009006202 active site 1030009006203 I-site; other site 1030009006204 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1030009006205 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1030009006206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1030009006207 metal binding site [ion binding]; metal-binding site 1030009006208 active site 1030009006209 I-site; other site 1030009006210 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 1030009006211 malate dehydrogenase; Provisional; Region: PRK13529 1030009006212 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1030009006213 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1030009006214 NAD(P) binding pocket [chemical binding]; other site 1030009006215 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1030009006216 Beta-lactamase; Region: Beta-lactamase; pfam00144 1030009006217 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1030009006218 Pyruvate formate lyase 1; Region: PFL1; cd01678 1030009006219 coenzyme A binding site [chemical binding]; other site 1030009006220 active site 1030009006221 catalytic residues [active] 1030009006222 glycine loop; other site 1030009006223 HI0933-like protein; Region: HI0933_like; pfam03486 1030009006224 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1030009006225 Predicted Zn-dependent protease [General function prediction only]; Region: COG2738 1030009006226 Predicted membrane protein [Function unknown]; Region: COG4347 1030009006227 hypothetical protein; Provisional; Region: PRK03636 1030009006228 UPF0302 domain; Region: UPF0302; pfam08864 1030009006229 IDEAL domain; Region: IDEAL; pfam08858 1030009006230 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 1030009006231 binding surface 1030009006232 TPR motif; other site 1030009006233 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 1030009006234 binding surface 1030009006235 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1030009006236 TPR motif; other site 1030009006237 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 1030009006238 binding surface 1030009006239 TPR motif; other site 1030009006240 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1030009006241 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 1030009006242 hinge; other site 1030009006243 active site 1030009006244 prephenate dehydrogenase; Validated; Region: PRK06545 1030009006245 prephenate dehydrogenase; Validated; Region: PRK08507 1030009006246 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 1030009006247 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 1030009006248 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 1030009006249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009006250 homodimer interface [polypeptide binding]; other site 1030009006251 catalytic residue [active] 1030009006252 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 1030009006253 homotrimer interaction site [polypeptide binding]; other site 1030009006254 active site 1030009006255 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1030009006256 active site 1030009006257 dimer interface [polypeptide binding]; other site 1030009006258 metal binding site [ion binding]; metal-binding site 1030009006259 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1030009006260 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1030009006261 Tetramer interface [polypeptide binding]; other site 1030009006262 active site 1030009006263 FMN-binding site [chemical binding]; other site 1030009006264 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1030009006265 active site 1030009006266 multimer interface [polypeptide binding]; other site 1030009006267 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1030009006268 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1030009006269 substrate binding pocket [chemical binding]; other site 1030009006270 chain length determination region; other site 1030009006271 substrate-Mg2+ binding site; other site 1030009006272 catalytic residues [active] 1030009006273 aspartate-rich region 1; other site 1030009006274 active site lid residues [active] 1030009006275 aspartate-rich region 2; other site 1030009006276 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1030009006277 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 1030009006278 S-adenosylmethionine binding site [chemical binding]; other site 1030009006279 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 1030009006280 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 1030009006281 homodecamer interface [polypeptide binding]; other site 1030009006282 GTP cyclohydrolase I; Provisional; Region: PLN03044 1030009006283 active site 1030009006284 putative catalytic site residues [active] 1030009006285 zinc binding site [ion binding]; other site 1030009006286 GTP-CH-I/GFRP interaction surface; other site 1030009006287 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 1030009006288 IHF dimer interface [polypeptide binding]; other site 1030009006289 IHF - DNA interface [nucleotide binding]; other site 1030009006290 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1030009006291 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1030009006292 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1030009006293 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1030009006294 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1030009006295 GTP-binding protein Der; Reviewed; Region: PRK00093 1030009006296 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1030009006297 G1 box; other site 1030009006298 GTP/Mg2+ binding site [chemical binding]; other site 1030009006299 Switch I region; other site 1030009006300 G2 box; other site 1030009006301 Switch II region; other site 1030009006302 G3 box; other site 1030009006303 G4 box; other site 1030009006304 G5 box; other site 1030009006305 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1030009006306 G1 box; other site 1030009006307 GTP/Mg2+ binding site [chemical binding]; other site 1030009006308 Switch I region; other site 1030009006309 G2 box; other site 1030009006310 G3 box; other site 1030009006311 Switch II region; other site 1030009006312 G4 box; other site 1030009006313 G5 box; other site 1030009006314 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1030009006315 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 1030009006316 RNA binding site [nucleotide binding]; other site 1030009006317 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 1030009006318 RNA binding site [nucleotide binding]; other site 1030009006319 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 1030009006320 RNA binding site [nucleotide binding]; other site 1030009006321 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 1030009006322 RNA binding site [nucleotide binding]; other site 1030009006323 cytidylate kinase; Provisional; Region: cmk; PRK00023 1030009006324 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 1030009006325 CMP-binding site; other site 1030009006326 The sites determining sugar specificity; other site 1030009006327 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1030009006328 active site 1030009006329 homotetramer interface [polypeptide binding]; other site 1030009006330 homodimer interface [polypeptide binding]; other site 1030009006331 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009006332 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1030009006333 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 1030009006334 ATP binding site [chemical binding]; other site 1030009006335 putative Mg++ binding site [ion binding]; other site 1030009006336 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 1030009006337 nucleotide binding region [chemical binding]; other site 1030009006338 ATP-binding site [chemical binding]; other site 1030009006339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1030009006340 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1030009006341 Predicted membrane protein [Function unknown]; Region: COG3601 1030009006342 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1030009006343 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 1030009006344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1030009006345 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 1030009006346 dimerization interface [polypeptide binding]; other site 1030009006347 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 1030009006348 dimer interface [polypeptide binding]; other site 1030009006349 phosphorylation site [posttranslational modification] 1030009006350 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 1030009006351 ATP binding site [chemical binding]; other site 1030009006352 Mg2+ binding site [ion binding]; other site 1030009006353 G-X-G motif; other site 1030009006354 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009006355 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 1030009006356 active site 1030009006357 phosphorylation site [posttranslational modification] 1030009006358 intermolecular recognition site; other site 1030009006359 dimerization interface [polypeptide binding]; other site 1030009006360 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 1030009006361 DNA binding site [nucleotide binding] 1030009006362 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1030009006363 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 1030009006364 RNA binding surface [nucleotide binding]; other site 1030009006365 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1030009006366 active site 1030009006367 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1030009006368 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1030009006369 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1030009006370 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1030009006371 active site 1030009006372 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1030009006373 substrate binding site [chemical binding]; other site 1030009006374 catalytic residues [active] 1030009006375 dimer interface [polypeptide binding]; other site 1030009006376 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1030009006377 phosphopentomutase; Provisional; Region: PRK05362 1030009006378 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1030009006379 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 1030009006380 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1030009006381 active site 1030009006382 Int/Topo IB signature motif; other site 1030009006383 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1030009006384 metal binding site 2 [ion binding]; metal-binding site 1030009006385 putative DNA binding helix; other site 1030009006386 metal binding site 1 [ion binding]; metal-binding site 1030009006387 dimer interface [polypeptide binding]; other site 1030009006388 structural Zn2+ binding site [ion binding]; other site 1030009006389 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1030009006390 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 1030009006391 ABC-ATPase subunit interface; other site 1030009006392 dimer interface [polypeptide binding]; other site 1030009006393 putative PBP binding regions; other site 1030009006394 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1030009006395 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 1030009006396 ABC-ATPase subunit interface; other site 1030009006397 dimer interface [polypeptide binding]; other site 1030009006398 putative PBP binding regions; other site 1030009006399 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1030009006400 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 1030009006401 putative ligand binding residues [chemical binding]; other site 1030009006402 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1030009006403 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1030009006404 Walker A/P-loop; other site 1030009006405 ATP binding site [chemical binding]; other site 1030009006406 Q-loop/lid; other site 1030009006407 ABC transporter signature motif; other site 1030009006408 Walker B; other site 1030009006409 D-loop; other site 1030009006410 H-loop/switch region; other site 1030009006411 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1030009006412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1030009006413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009006414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009006415 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1030009006416 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1030009006417 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1030009006418 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1030009006419 Walker A/P-loop; other site 1030009006420 ATP binding site [chemical binding]; other site 1030009006421 Q-loop/lid; other site 1030009006422 ABC transporter signature motif; other site 1030009006423 Walker B; other site 1030009006424 D-loop; other site 1030009006425 H-loop/switch region; other site 1030009006426 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1030009006427 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 1030009006428 dimer interface [polypeptide binding]; other site 1030009006429 ADP-ribose binding site [chemical binding]; other site 1030009006430 active site 1030009006431 nudix motif; other site 1030009006432 metal binding site [ion binding]; metal-binding site 1030009006433 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]; Region: XpaC; COG4915 1030009006434 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1030009006435 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1030009006436 active site 1030009006437 DNA polymerase IV; Validated; Region: PRK02406 1030009006438 DNA binding site [nucleotide binding] 1030009006439 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1030009006440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1030009006441 NAD(P) binding site [chemical binding]; other site 1030009006442 active site 1030009006443 ribonuclease Z; Region: RNase_Z; TIGR02651 1030009006444 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1030009006445 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1030009006446 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1030009006447 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 1030009006448 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1030009006449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009006450 Coenzyme A binding pocket [chemical binding]; other site 1030009006451 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1030009006452 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1030009006453 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 1030009006454 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1030009006455 PYR/PP interface [polypeptide binding]; other site 1030009006456 dimer interface [polypeptide binding]; other site 1030009006457 TPP binding site [chemical binding]; other site 1030009006458 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1030009006459 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 1030009006460 TPP-binding site [chemical binding]; other site 1030009006461 dimer interface [polypeptide binding]; other site 1030009006462 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1030009006463 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1030009006464 putative valine binding site [chemical binding]; other site 1030009006465 dimer interface [polypeptide binding]; other site 1030009006466 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1030009006467 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1030009006468 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1030009006469 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1030009006470 2-isopropylmalate synthase; Validated; Region: PRK00915 1030009006471 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1030009006472 active site 1030009006473 catalytic residues [active] 1030009006474 metal binding site [ion binding]; metal-binding site 1030009006475 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1030009006476 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1030009006477 tartrate dehydrogenase; Region: TTC; TIGR02089 1030009006478 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1030009006479 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1030009006480 substrate binding site [chemical binding]; other site 1030009006481 ligand binding site [chemical binding]; other site 1030009006482 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1030009006483 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 1030009006484 substrate binding site [chemical binding]; other site 1030009006485 threonine dehydratase; Validated; Region: PRK08639 1030009006486 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 1030009006487 tetramer interface [polypeptide binding]; other site 1030009006488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009006489 catalytic residue [active] 1030009006490 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1030009006491 alpha-acetolactate decarboxylase; Region: acetolac_decarb; TIGR01252 1030009006492 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1030009006493 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1030009006494 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1030009006495 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1030009006496 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009006497 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009006498 DNA binding site [nucleotide binding] 1030009006499 domain linker motif; other site 1030009006500 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 1030009006501 dimerization interface [polypeptide binding]; other site 1030009006502 ligand binding site [chemical binding]; other site 1030009006503 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1030009006504 intersubunit interface [polypeptide binding]; other site 1030009006505 active site 1030009006506 catalytic residue [active] 1030009006507 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1030009006508 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 1030009006509 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1030009006510 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 1030009006511 active pocket/dimerization site; other site 1030009006512 active site 1030009006513 phosphorylation site [posttranslational modification] 1030009006514 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1030009006515 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 1030009006516 putative active site [active] 1030009006517 SIS domain; Region: SIS; pfam01380 1030009006518 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1030009006519 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 1030009006520 dimer interface [polypeptide binding]; other site 1030009006521 active site 1030009006522 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 1030009006523 dimer interface [polypeptide binding]; other site 1030009006524 active site 1030009006525 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1030009006526 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1030009006527 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 1030009006528 active site 1030009006529 phosphorylation site [posttranslational modification] 1030009006530 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009006531 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009006532 DNA-binding site [nucleotide binding]; DNA binding site 1030009006533 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1030009006534 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009006535 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009006536 DNA-binding site [nucleotide binding]; DNA binding site 1030009006537 UTRA domain; Region: UTRA; pfam07702 1030009006538 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 1030009006539 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009006540 active site 1030009006541 catalytic tetrad [active] 1030009006542 acetolactate synthase; Reviewed; Region: PRK08617 1030009006543 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1030009006544 PYR/PP interface [polypeptide binding]; other site 1030009006545 dimer interface [polypeptide binding]; other site 1030009006546 TPP binding site [chemical binding]; other site 1030009006547 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1030009006548 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 1030009006549 TPP-binding site [chemical binding]; other site 1030009006550 dimer interface [polypeptide binding]; other site 1030009006551 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1030009006552 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1030009006553 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1030009006554 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1030009006555 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 1030009006556 dimer interface [polypeptide binding]; other site 1030009006557 conserved gate region; other site 1030009006558 ABC-ATPase subunit interface; other site 1030009006559 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1030009006560 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 1030009006561 dimer interface [polypeptide binding]; other site 1030009006562 conserved gate region; other site 1030009006563 ABC-ATPase subunit interface; other site 1030009006564 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1030009006565 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 1030009006566 active site 1030009006567 phosphorylation site [posttranslational modification] 1030009006568 intermolecular recognition site; other site 1030009006569 dimerization interface [polypeptide binding]; other site 1030009006570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009006571 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1030009006572 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 1030009006573 dimerization interface [polypeptide binding]; other site 1030009006574 Histidine kinase; Region: His_kinase; pfam06580 1030009006575 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 1030009006576 ATP binding site [chemical binding]; other site 1030009006577 Mg2+ binding site [ion binding]; other site 1030009006578 G-X-G motif; other site 1030009006579 Predicted integral membrane protein [Function unknown]; Region: COG5578 1030009006580 Uncharacterized conserved protein [Function unknown]; Region: COG3538 1030009006581 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 1030009006582 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1030009006583 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 1030009006584 active site 1030009006585 metal binding site [ion binding]; metal-binding site 1030009006586 homodimer interface [polypeptide binding]; other site 1030009006587 catalytic site [active] 1030009006588 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1030009006589 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1030009006590 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 1030009006591 active site 1030009006592 catalytic site [active] 1030009006593 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1030009006594 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 1030009006595 DNA-binding site [nucleotide binding]; DNA binding site 1030009006596 RNA-binding motif; other site 1030009006597 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1030009006598 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 1030009006599 active site 1030009006600 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1030009006601 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1030009006602 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1030009006603 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1030009006604 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1030009006605 HIGH motif; other site 1030009006606 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1030009006607 active site 1030009006608 KMSKS motif; other site 1030009006609 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1030009006610 tRNA binding surface [nucleotide binding]; other site 1030009006611 anticodon binding site; other site 1030009006612 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1030009006613 DivIVA protein; Region: DivIVA; pfam05103 1030009006614 DivIVA domain; Region: DivI1A_domain; TIGR03544 1030009006615 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1030009006616 HTH domain; Region: HTH_11; pfam08279 1030009006617 3H domain; Region: 3H; pfam02829 1030009006618 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1030009006619 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1030009006620 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1030009006621 catalytic residue [active] 1030009006622 L-aspartate oxidase; Provisional; Region: PRK08071 1030009006623 L-aspartate oxidase; Provisional; Region: PRK06175 1030009006624 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1030009006625 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 1030009006626 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 1030009006627 dimerization interface [polypeptide binding]; other site 1030009006628 active site 1030009006629 quinolinate synthetase; Provisional; Region: PRK09375 1030009006630 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1030009006631 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 1030009006632 RNA binding surface [nucleotide binding]; other site 1030009006633 YGGT family; Region: YGGT; pfam02325 1030009006634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1030009006635 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1030009006636 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1030009006637 catalytic residue [active] 1030009006638 cell division protein FtsZ; Validated; Region: PRK09330 1030009006639 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 1030009006640 nucleotide binding site [chemical binding]; other site 1030009006641 SulA interaction site; other site 1030009006642 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1030009006643 Cell division protein FtsA; Region: FtsA; smart00842 1030009006644 Cell division protein FtsA; Region: FtsA; pfam14450 1030009006645 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1030009006646 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1030009006647 Cell division protein FtsQ; Region: FtsQ; pfam03799 1030009006648 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1030009006649 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 1030009006650 active site 1030009006651 homodimer interface [polypeptide binding]; other site 1030009006652 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1030009006653 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1030009006654 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1030009006655 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1030009006656 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 1030009006657 Mg++ binding site [ion binding]; other site 1030009006658 putative catalytic motif [active] 1030009006659 putative substrate binding site [chemical binding]; other site 1030009006660 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1030009006661 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1030009006662 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1030009006663 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1030009006664 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1030009006665 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1030009006666 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1030009006667 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 1030009006668 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 1030009006669 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 1030009006670 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1030009006671 MraW methylase family; Region: Methyltransf_5; pfam01795 1030009006672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1030009006673 MraZ protein; Region: MraZ; pfam02381 1030009006674 MraZ protein; Region: MraZ; pfam02381 1030009006675 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009006676 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 1030009006677 putative substrate translocation pore; other site 1030009006678 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 1030009006679 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1030009006680 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 1030009006681 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1030009006682 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1030009006683 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1030009006684 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1030009006685 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1030009006686 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1030009006687 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 1030009006688 hypothetical protein; Provisional; Region: PRK13670 1030009006689 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1030009006690 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1030009006691 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009006692 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14267 1030009006693 Walker A/P-loop; other site 1030009006694 ATP binding site [chemical binding]; other site 1030009006695 Q-loop/lid; other site 1030009006696 ABC transporter signature motif; other site 1030009006697 Walker B; other site 1030009006698 D-loop; other site 1030009006699 H-loop/switch region; other site 1030009006700 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1030009006701 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 1030009006702 protein binding site [polypeptide binding]; other site 1030009006703 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1030009006704 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1030009006705 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1030009006706 active site 1030009006707 (T/H)XGH motif; other site 1030009006708 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1030009006709 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 1030009006710 S-adenosylmethionine binding site [chemical binding]; other site 1030009006711 hypothetical protein; Provisional; Region: PRK02886 1030009006712 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 1030009006713 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1030009006714 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 1030009006715 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1030009006716 UbiA prenyltransferase family; Region: UbiA; pfam01040 1030009006717 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1030009006718 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1030009006719 Ion transport protein; Region: Ion_trans; pfam00520 1030009006720 Ion channel; Region: Ion_trans_2; pfam07885 1030009006721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1030009006722 MOSC domain; Region: MOSC; pfam03473 1030009006723 3-alpha domain; Region: 3-alpha; pfam03475 1030009006724 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1030009006725 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 1030009006726 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1030009006727 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13953 1030009006728 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1030009006729 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 1030009006730 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 1030009006731 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1030009006732 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 1030009006733 active site 1030009006734 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1030009006735 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 1030009006736 ring oligomerisation interface [polypeptide binding]; other site 1030009006737 ATP/Mg binding site [chemical binding]; other site 1030009006738 stacking interactions; other site 1030009006739 hinge regions; other site 1030009006740 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 1030009006741 oligomerisation interface [polypeptide binding]; other site 1030009006742 mobile loop; other site 1030009006743 roof hairpin; other site 1030009006744 CAAX protease self-immunity; Region: Abi; pfam02517 1030009006745 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1030009006746 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1030009006747 CoA binding domain; Region: CoA_binding; pfam02629 1030009006748 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1030009006749 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009006750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009006751 Q-loop/lid; other site 1030009006752 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009006753 ABC transporter signature motif; other site 1030009006754 Walker B; other site 1030009006755 D-loop; other site 1030009006756 ABC transporter; Region: ABC_tran_2; pfam12848 1030009006757 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009006758 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1030009006759 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1030009006760 UGMP family protein; Validated; Region: PRK09604 1030009006761 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1030009006762 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1030009006763 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009006764 Coenzyme A binding pocket [chemical binding]; other site 1030009006765 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1030009006766 Glycoprotease family; Region: Peptidase_M22; pfam00814 1030009006767 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1030009006768 camphor resistance protein CrcB; Provisional; Region: PRK14214 1030009006769 camphor resistance protein CrcB; Provisional; Region: PRK14231 1030009006770 Uncharacterized conserved protein [Function unknown]; Region: COG4832 1030009006771 Phosphotransferase enzyme family; Region: APH; pfam01636 1030009006772 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 1030009006773 active site 1030009006774 substrate binding site [chemical binding]; other site 1030009006775 ATP binding site [chemical binding]; other site 1030009006776 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 1030009006777 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1030009006778 active site 1030009006779 DNA binding site [nucleotide binding] 1030009006780 Int/Topo IB signature motif; other site 1030009006781 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1030009006782 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1030009006783 active site 1030009006784 ATP binding site [chemical binding]; other site 1030009006785 substrate binding site [chemical binding]; other site 1030009006786 activation loop (A-loop); other site 1030009006787 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1030009006788 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1030009006789 catalytic residues [active] 1030009006790 catalytic nucleophile [active] 1030009006791 Presynaptic Site I dimer interface [polypeptide binding]; other site 1030009006792 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1030009006793 Synaptic Flat tetramer interface [polypeptide binding]; other site 1030009006794 Synaptic Site I dimer interface [polypeptide binding]; other site 1030009006795 DNA binding site [nucleotide binding] 1030009006796 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009006797 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 1030009006798 non-specific DNA binding site [nucleotide binding]; other site 1030009006799 salt bridge; other site 1030009006800 sequence-specific DNA binding site [nucleotide binding]; other site 1030009006801 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009006802 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009006803 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009006804 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009006805 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 1030009006806 non-specific DNA binding site [nucleotide binding]; other site 1030009006807 salt bridge; other site 1030009006808 sequence-specific DNA binding site [nucleotide binding]; other site 1030009006809 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 1030009006810 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1030009006811 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009006812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009006813 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 1030009006814 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1030009006815 substrate binding pocket [chemical binding]; other site 1030009006816 argininosuccinate synthase; Provisional; Region: PRK13820 1030009006817 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 1030009006818 ANP binding site [chemical binding]; other site 1030009006819 Substrate Binding Site II [chemical binding]; other site 1030009006820 Substrate Binding Site I [chemical binding]; other site 1030009006821 argininosuccinate lyase; Provisional; Region: PRK00855 1030009006822 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1030009006823 active sites [active] 1030009006824 tetramer interface [polypeptide binding]; other site 1030009006825 BCCT family transporter; Region: BCCT; pfam02028 1030009006826 hypothetical protein; Provisional; Region: PRK06357 1030009006827 active site 1030009006828 intersubunit interface [polypeptide binding]; other site 1030009006829 Zn2+ binding site [ion binding]; other site 1030009006830 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1030009006831 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 1030009006832 putative substrate binding site [chemical binding]; other site 1030009006833 putative ATP binding site [chemical binding]; other site 1030009006834 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1030009006835 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1030009006836 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 1030009006837 active site 1030009006838 P-loop; other site 1030009006839 phosphorylation site [posttranslational modification] 1030009006840 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 1030009006841 active site 1030009006842 phosphorylation site [posttranslational modification] 1030009006843 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009006844 PRD domain; Region: PRD; pfam00874 1030009006845 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 1030009006846 active site 1030009006847 P-loop; other site 1030009006848 phosphorylation site [posttranslational modification] 1030009006849 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 1030009006850 active site 1030009006851 phosphorylation site [posttranslational modification] 1030009006852 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 1030009006853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009006854 DNA-binding site [nucleotide binding]; DNA binding site 1030009006855 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 1030009006856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009006857 homodimer interface [polypeptide binding]; other site 1030009006858 catalytic residue [active] 1030009006859 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1030009006860 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 1030009006861 active site 1030009006862 multimer interface [polypeptide binding]; other site 1030009006863 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 1030009006864 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1030009006865 predicted active site [active] 1030009006866 catalytic triad [active] 1030009006867 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1030009006868 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1030009006869 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1030009006870 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1030009006871 G1 box; other site 1030009006872 GTP/Mg2+ binding site [chemical binding]; other site 1030009006873 Switch I region; other site 1030009006874 G2 box; other site 1030009006875 G3 box; other site 1030009006876 Switch II region; other site 1030009006877 G4 box; other site 1030009006878 G5 box; other site 1030009006879 Nucleoside recognition; Region: Gate; pfam07670 1030009006880 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1030009006881 Nucleoside recognition; Region: Gate; pfam07670 1030009006882 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1030009006883 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1030009006884 putative active site [active] 1030009006885 putative metal binding site [ion binding]; other site 1030009006886 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1030009006887 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1030009006888 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1030009006889 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1030009006890 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 1030009006891 active site 1030009006892 dimer interface [polypeptide binding]; other site 1030009006893 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1030009006894 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1030009006895 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1030009006896 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 1030009006897 dimer interface [polypeptide binding]; other site 1030009006898 FMN binding site [chemical binding]; other site 1030009006899 NADPH bind site [chemical binding]; other site 1030009006900 Helix-turn-helix domain; Region: HTH_17; pfam12728 1030009006901 putative heme peroxidase; Provisional; Region: PRK12276 1030009006902 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009006903 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009006904 Walker A/P-loop; other site 1030009006905 ATP binding site [chemical binding]; other site 1030009006906 Q-loop/lid; other site 1030009006907 ABC transporter signature motif; other site 1030009006908 Walker B; other site 1030009006909 D-loop; other site 1030009006910 H-loop/switch region; other site 1030009006911 FtsX-like permease family; Region: FtsX; pfam02687 1030009006912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009006913 Coenzyme A binding pocket [chemical binding]; other site 1030009006914 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1030009006915 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 1030009006916 active site 1030009006917 substrate binding site [chemical binding]; other site 1030009006918 metal binding site [ion binding]; metal-binding site 1030009006919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1030009006920 YbbR-like protein; Region: YbbR; pfam07949 1030009006921 YbbR-like protein; Region: YbbR; pfam07949 1030009006922 YbbR-like protein; Region: YbbR; pfam07949 1030009006923 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1030009006924 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1030009006925 maltose phosphorylase; Provisional; Region: PRK13807 1030009006926 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1030009006927 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1030009006928 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1030009006929 Predicted integral membrane protein [Function unknown]; Region: COG5521 1030009006930 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1030009006931 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 1030009006932 dimer interface [polypeptide binding]; other site 1030009006933 conserved gate region; other site 1030009006934 putative PBP binding loops; other site 1030009006935 ABC-ATPase subunit interface; other site 1030009006936 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 1030009006937 dimer interface [polypeptide binding]; other site 1030009006938 conserved gate region; other site 1030009006939 putative PBP binding loops; other site 1030009006940 ABC-ATPase subunit interface; other site 1030009006941 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1030009006942 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1030009006943 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1030009006944 homodimer interface [polypeptide binding]; other site 1030009006945 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1030009006946 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1030009006947 active site 1030009006948 homodimer interface [polypeptide binding]; other site 1030009006949 catalytic site [active] 1030009006950 CAAX protease self-immunity; Region: Abi; cl00558 1030009006951 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009006952 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009006953 DNA binding site [nucleotide binding] 1030009006954 domain linker motif; other site 1030009006955 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 1030009006956 ligand binding site [chemical binding]; other site 1030009006957 dimerization interface [polypeptide binding]; other site 1030009006958 Amino acid permease; Region: AA_permease_2; pfam13520 1030009006959 K+ potassium transporter; Region: K_trans; cl15781 1030009006960 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009006961 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009006962 ligand binding site [chemical binding]; other site 1030009006963 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009006964 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; cl00047 1030009006965 ligand binding site [chemical binding]; other site 1030009006966 flexible hinge region; other site 1030009006967 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1030009006968 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 1030009006969 intersubunit interface [polypeptide binding]; other site 1030009006970 active site 1030009006971 zinc binding site [ion binding]; other site 1030009006972 Na+ binding site [ion binding]; other site 1030009006973 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 1030009006974 intersubunit interface [polypeptide binding]; other site 1030009006975 active site 1030009006976 zinc binding site [ion binding]; other site 1030009006977 Na+ binding site [ion binding]; other site 1030009006978 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1030009006979 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 1030009006980 active site 1030009006981 P-loop; other site 1030009006982 phosphorylation site [posttranslational modification] 1030009006983 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 1030009006984 active site 1030009006985 phosphorylation site [posttranslational modification] 1030009006986 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009006987 HTH domain; Region: HTH_11; pfam08279 1030009006988 PRD domain; Region: PRD; pfam00874 1030009006989 PRD domain; Region: PRD; pfam00874 1030009006990 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 1030009006991 active site 1030009006992 P-loop; other site 1030009006993 phosphorylation site [posttranslational modification] 1030009006994 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1030009006995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009006996 Walker A/P-loop; other site 1030009006997 ATP binding site [chemical binding]; other site 1030009006998 Q-loop/lid; other site 1030009006999 ABC transporter signature motif; other site 1030009007000 Walker B; other site 1030009007001 D-loop; other site 1030009007002 H-loop/switch region; other site 1030009007003 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1030009007004 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1030009007005 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1030009007006 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009007007 Coenzyme A binding pocket [chemical binding]; other site 1030009007008 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1030009007009 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1030009007010 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1030009007011 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1030009007012 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009007013 DNA-binding site [nucleotide binding]; DNA binding site 1030009007014 UTRA domain; Region: UTRA; pfam07702 1030009007015 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1030009007016 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1030009007017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1030009007018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1030009007019 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 1030009007020 putative dimerization interface [polypeptide binding]; other site 1030009007021 Predicted membrane protein [Function unknown]; Region: COG2855 1030009007022 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 1030009007023 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 1030009007024 putative metal binding site [ion binding]; other site 1030009007025 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 1030009007026 homodimer interface [polypeptide binding]; other site 1030009007027 chemical substrate binding site [chemical binding]; other site 1030009007028 oligomer interface [polypeptide binding]; other site 1030009007029 metal binding site [ion binding]; metal-binding site 1030009007030 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 1030009007031 catalytic residues [active] 1030009007032 flavodoxin; Provisional; Region: PRK09271 1030009007033 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1030009007034 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1030009007035 dimer interface [polypeptide binding]; other site 1030009007036 putative radical transfer pathway; other site 1030009007037 diiron center [ion binding]; other site 1030009007038 tyrosyl radical; other site 1030009007039 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 1030009007040 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1030009007041 active site 1030009007042 dimer interface [polypeptide binding]; other site 1030009007043 catalytic residues [active] 1030009007044 effector binding site; other site 1030009007045 R2 peptide binding site; other site 1030009007046 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 1030009007047 CsbD-like; Region: CsbD; cl17424 1030009007048 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1030009007049 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009007050 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1030009007051 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1030009007052 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1030009007053 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1030009007054 conserved cys residue [active] 1030009007055 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1030009007056 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1030009007057 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009007058 Cupin domain; Region: Cupin_2; pfam07883 1030009007059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1030009007060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009007061 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009007062 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 1030009007063 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009007064 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009007065 ligand binding site [chemical binding]; other site 1030009007066 flexible hinge region; other site 1030009007067 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 1030009007068 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1030009007069 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009007070 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1030009007071 dimer interface [polypeptide binding]; other site 1030009007072 active site 1030009007073 metal binding site [ion binding]; metal-binding site 1030009007074 glutathione binding site [chemical binding]; other site 1030009007075 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1030009007076 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 1030009007077 FMN binding site [chemical binding]; other site 1030009007078 substrate binding site [chemical binding]; other site 1030009007079 putative catalytic residue [active] 1030009007080 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1030009007081 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1030009007082 Coenzyme A transferase; Region: CoA_trans; smart00882 1030009007083 Coenzyme A transferase; Region: CoA_trans; cl17247 1030009007084 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1030009007085 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 1030009007086 Walker A motif; other site 1030009007087 ATP binding site [chemical binding]; other site 1030009007088 Walker B motif; other site 1030009007089 arginine finger; other site 1030009007090 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1030009007091 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1030009007092 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1030009007093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1030009007094 metal binding site [ion binding]; metal-binding site 1030009007095 active site 1030009007096 I-site; other site 1030009007097 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1030009007098 classical (c) SDRs; Region: SDR_c; cd05233 1030009007099 NAD(P) binding site [chemical binding]; other site 1030009007100 active site 1030009007101 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009007102 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009007103 Tic20-like protein; Region: Tic20; pfam09685 1030009007104 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1030009007105 Collagen binding domain; Region: Collagen_bind; pfam05737 1030009007106 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007107 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007108 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007109 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007110 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007111 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007112 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007113 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1030009007114 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007115 Collagen binding domain; Region: Collagen_bind; pfam05737 1030009007116 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007117 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007118 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007119 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007120 Cna protein B-type domain; Region: Cna_B; pfam05738 1030009007121 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007122 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007123 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007124 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1030009007125 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 1030009007126 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 1030009007127 active site 1030009007128 catalytic site [active] 1030009007129 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1030009007130 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1030009007131 Walker A/P-loop; other site 1030009007132 ATP binding site [chemical binding]; other site 1030009007133 Q-loop/lid; other site 1030009007134 ABC transporter signature motif; other site 1030009007135 Walker B; other site 1030009007136 D-loop; other site 1030009007137 H-loop/switch region; other site 1030009007138 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1030009007139 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 1030009007140 ABC-ATPase subunit interface; other site 1030009007141 dimer interface [polypeptide binding]; other site 1030009007142 putative PBP binding regions; other site 1030009007143 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 1030009007144 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 1030009007145 intersubunit interface [polypeptide binding]; other site 1030009007146 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 1030009007147 heme-binding site [chemical binding]; other site 1030009007148 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 1030009007149 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 1030009007150 heme-binding site [chemical binding]; other site 1030009007151 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 1030009007152 heme-binding site [chemical binding]; other site 1030009007153 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 1030009007154 heme uptake protein IsdC; Region: IsdC; TIGR03656 1030009007155 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 1030009007156 heme-binding site [chemical binding]; other site 1030009007157 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 1030009007158 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 1030009007159 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1030009007160 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1030009007161 active site 1030009007162 Zn binding site [ion binding]; other site 1030009007163 Competence protein CoiA-like family; Region: CoiA; cl11541 1030009007164 Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]; Region: MecA; COG4862 1030009007165 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 1030009007166 ArsC family; Region: ArsC; pfam03960 1030009007167 putative catalytic residues [active] 1030009007168 thiol/disulfide switch; other site 1030009007169 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1030009007170 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1030009007171 Walker A/P-loop; other site 1030009007172 ATP binding site [chemical binding]; other site 1030009007173 Q-loop/lid; other site 1030009007174 ABC transporter signature motif; other site 1030009007175 Walker B; other site 1030009007176 D-loop; other site 1030009007177 H-loop/switch region; other site 1030009007178 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1030009007179 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1030009007180 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1030009007181 Walker A/P-loop; other site 1030009007182 ATP binding site [chemical binding]; other site 1030009007183 Q-loop/lid; other site 1030009007184 ABC transporter signature motif; other site 1030009007185 Walker B; other site 1030009007186 D-loop; other site 1030009007187 H-loop/switch region; other site 1030009007188 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1030009007189 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1030009007190 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 1030009007191 dimer interface [polypeptide binding]; other site 1030009007192 conserved gate region; other site 1030009007193 putative PBP binding loops; other site 1030009007194 ABC-ATPase subunit interface; other site 1030009007195 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1030009007196 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 1030009007197 dimer interface [polypeptide binding]; other site 1030009007198 conserved gate region; other site 1030009007199 putative PBP binding loops; other site 1030009007200 ABC-ATPase subunit interface; other site 1030009007201 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1030009007202 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1030009007203 peptide binding site [polypeptide binding]; other site 1030009007204 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 1030009007205 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1030009007206 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1030009007207 active site 1030009007208 HIGH motif; other site 1030009007209 dimer interface [polypeptide binding]; other site 1030009007210 KMSKS motif; other site 1030009007211 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1030009007212 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1030009007213 MarR family; Region: MarR; pfam01047 1030009007214 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1030009007215 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 1030009007216 dimer interface [polypeptide binding]; other site 1030009007217 active site 1030009007218 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1030009007219 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 1030009007220 dimer interface [polypeptide binding]; other site 1030009007221 active site 1030009007222 CoA binding pocket [chemical binding]; other site 1030009007223 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1030009007224 SH3-like domain; Region: SH3_8; pfam13457 1030009007225 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1030009007226 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 1030009007227 catalytic core [active] 1030009007228 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 1030009007229 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1030009007230 Clp amino terminal domain; Region: Clp_N; pfam02861 1030009007231 Clp amino terminal domain; Region: Clp_N; pfam02861 1030009007232 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 1030009007233 Walker A motif; other site 1030009007234 ATP binding site [chemical binding]; other site 1030009007235 Walker B motif; other site 1030009007236 arginine finger; other site 1030009007237 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 1030009007238 Walker A motif; other site 1030009007239 ATP binding site [chemical binding]; other site 1030009007240 Walker B motif; other site 1030009007241 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1030009007242 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1030009007243 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1030009007244 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009007245 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 1030009007246 active site 1030009007247 motif I; other site 1030009007248 motif II; other site 1030009007249 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1030009007250 Predicted acetyltransferase [General function prediction only]; Region: COG3393 1030009007251 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1030009007252 ferrochelatase; Provisional; Region: PRK12435 1030009007253 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 1030009007254 C-terminal domain interface [polypeptide binding]; other site 1030009007255 active site 1030009007256 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 1030009007257 active site 1030009007258 N-terminal domain interface [polypeptide binding]; other site 1030009007259 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1030009007260 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 1030009007261 substrate binding site [chemical binding]; other site 1030009007262 active site 1030009007263 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1030009007264 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 1030009007265 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1030009007266 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1030009007267 Walker A/P-loop; other site 1030009007268 ATP binding site [chemical binding]; other site 1030009007269 Q-loop/lid; other site 1030009007270 ABC transporter signature motif; other site 1030009007271 Walker B; other site 1030009007272 D-loop; other site 1030009007273 H-loop/switch region; other site 1030009007274 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 1030009007275 HIT family signature motif; other site 1030009007276 catalytic residue [active] 1030009007277 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 1030009007278 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 1030009007279 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1030009007280 SurA N-terminal domain; Region: SurA_N_3; cl07813 1030009007281 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1030009007282 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1030009007283 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 1030009007284 generic binding surface II; other site 1030009007285 generic binding surface I; other site 1030009007286 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009007287 Zn2+ binding site [ion binding]; other site 1030009007288 Mg2+ binding site [ion binding]; other site 1030009007289 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1030009007290 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1030009007291 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1030009007292 active site 1030009007293 metal binding site [ion binding]; metal-binding site 1030009007294 DNA binding site [nucleotide binding] 1030009007295 hypothetical protein; Provisional; Region: PRK13676 1030009007296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1030009007297 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1030009007298 Class II fumarases; Region: Fumarase_classII; cd01362 1030009007299 active site 1030009007300 tetramer interface [polypeptide binding]; other site 1030009007301 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1030009007302 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1030009007303 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1030009007304 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1030009007305 Walker A/P-loop; other site 1030009007306 ATP binding site [chemical binding]; other site 1030009007307 Q-loop/lid; other site 1030009007308 ABC transporter signature motif; other site 1030009007309 Walker B; other site 1030009007310 D-loop; other site 1030009007311 H-loop/switch region; other site 1030009007312 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1030009007313 Transglycosylase; Region: Transgly; pfam00912 1030009007314 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1030009007315 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1030009007316 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1030009007317 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1030009007318 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1030009007319 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1030009007320 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1030009007321 Domain of unknown function DUF21; Region: DUF21; pfam01595 1030009007322 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 1030009007323 Transporter associated domain; Region: CorC_HlyC; smart01091 1030009007324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1030009007325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1030009007326 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 1030009007327 putative dimerization interface [polypeptide binding]; other site 1030009007328 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1030009007329 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1030009007330 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 1030009007331 active site 1030009007332 FMN binding site [chemical binding]; other site 1030009007333 substrate binding site [chemical binding]; other site 1030009007334 putative catalytic residue [active] 1030009007335 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1030009007336 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009007337 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1030009007338 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1030009007339 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1030009007340 shikimate binding site; other site 1030009007341 NAD(P) binding site [chemical binding]; other site 1030009007342 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 1030009007343 putative substrate translocation pore; other site 1030009007344 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009007345 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 1030009007346 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009007347 putative substrate translocation pore; other site 1030009007348 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1030009007349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009007350 Walker A/P-loop; other site 1030009007351 ATP binding site [chemical binding]; other site 1030009007352 Q-loop/lid; other site 1030009007353 ABC transporter signature motif; other site 1030009007354 Walker B; other site 1030009007355 D-loop; other site 1030009007356 H-loop/switch region; other site 1030009007357 Predicted transcriptional regulators [Transcription]; Region: COG1725 1030009007358 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1030009007359 DNA-binding site [nucleotide binding]; DNA binding site 1030009007360 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1030009007361 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1030009007362 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 1030009007363 DNA binding site [nucleotide binding] 1030009007364 active site 1030009007365 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1030009007366 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1030009007367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009007368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009007369 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1030009007370 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1030009007371 active site 1030009007372 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 1030009007373 putative dimer interface [polypeptide binding]; other site 1030009007374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1030009007375 ligand binding site [chemical binding]; other site 1030009007376 Zn binding site [ion binding]; other site 1030009007377 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1030009007378 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 1030009007379 active site 1030009007380 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 1030009007381 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009007382 active site 1030009007383 catalytic tetrad [active] 1030009007384 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1030009007385 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1030009007386 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 1030009007387 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1030009007388 substrate binding pocket [chemical binding]; other site 1030009007389 membrane-bound complex binding site; other site 1030009007390 hinge residues; other site 1030009007391 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1030009007392 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 1030009007393 dimer interface [polypeptide binding]; other site 1030009007394 conserved gate region; other site 1030009007395 putative PBP binding loops; other site 1030009007396 ABC-ATPase subunit interface; other site 1030009007397 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1030009007398 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1030009007399 Walker A/P-loop; other site 1030009007400 ATP binding site [chemical binding]; other site 1030009007401 Q-loop/lid; other site 1030009007402 ABC transporter signature motif; other site 1030009007403 Walker B; other site 1030009007404 D-loop; other site 1030009007405 H-loop/switch region; other site 1030009007406 aspartate aminotransferase; Provisional; Region: PRK06348 1030009007407 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 1030009007408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009007409 homodimer interface [polypeptide binding]; other site 1030009007410 catalytic residue [active] 1030009007411 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1030009007412 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1030009007413 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 1030009007414 motif II; other site 1030009007415 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1030009007416 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1030009007417 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1030009007418 proposed catalytic triad [active] 1030009007419 conserved cys residue [active] 1030009007420 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 1030009007421 methionine cluster; other site 1030009007422 active site 1030009007423 phosphorylation site [posttranslational modification] 1030009007424 metal binding site [ion binding]; metal-binding site 1030009007425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009007426 Coenzyme A binding pocket [chemical binding]; other site 1030009007427 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1030009007428 esterase; Provisional; Region: PRK10566 1030009007429 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1030009007430 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009007431 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 1030009007432 motif II; other site 1030009007433 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 1030009007434 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1030009007435 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1030009007436 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1030009007437 hypothetical protein; Provisional; Region: PRK13673 1030009007438 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 1030009007439 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1030009007440 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1030009007441 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 1030009007442 Family description; Region: UvrD_C_2; pfam13538 1030009007443 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1030009007444 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1030009007445 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1030009007446 IDEAL domain; Region: IDEAL; pfam08858 1030009007447 ComK protein; Region: ComK; cl11560 1030009007448 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1030009007449 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 1030009007450 non-specific DNA binding site [nucleotide binding]; other site 1030009007451 salt bridge; other site 1030009007452 sequence-specific DNA binding site [nucleotide binding]; other site 1030009007453 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1030009007454 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 1030009007455 active site 1030009007456 phosphorylation site [posttranslational modification] 1030009007457 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 1030009007458 active site 1030009007459 P-loop; other site 1030009007460 phosphorylation site [posttranslational modification] 1030009007461 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1030009007462 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1030009007463 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 1030009007464 putative substrate binding site [chemical binding]; other site 1030009007465 putative ATP binding site [chemical binding]; other site 1030009007466 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1030009007467 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1030009007468 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1030009007469 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 1030009007470 trimer interface [polypeptide binding]; other site 1030009007471 active site 1030009007472 G bulge; other site 1030009007473 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1030009007474 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 1030009007475 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 1030009007476 non-specific DNA interactions [nucleotide binding]; other site 1030009007477 DNA binding site [nucleotide binding] 1030009007478 sequence specific DNA binding site [nucleotide binding]; other site 1030009007479 putative cAMP binding site [chemical binding]; other site 1030009007480 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 1030009007481 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1030009007482 substrate binding site [chemical binding]; other site 1030009007483 ATP binding site [chemical binding]; other site 1030009007484 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1030009007485 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 1030009007486 RNA binding surface [nucleotide binding]; other site 1030009007487 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1030009007488 active site 1030009007489 uracil binding [chemical binding]; other site 1030009007490 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 1030009007491 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1030009007492 active site 1030009007493 non-prolyl cis peptide bond; other site 1030009007494 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 1030009007495 catalytic residues [active] 1030009007496 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1030009007497 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1030009007498 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1030009007499 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1030009007500 Walker A/P-loop; other site 1030009007501 ATP binding site [chemical binding]; other site 1030009007502 Q-loop/lid; other site 1030009007503 ABC transporter signature motif; other site 1030009007504 Walker B; other site 1030009007505 D-loop; other site 1030009007506 H-loop/switch region; other site 1030009007507 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1030009007508 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 1030009007509 dimer interface [polypeptide binding]; other site 1030009007510 conserved gate region; other site 1030009007511 putative PBP binding loops; other site 1030009007512 ABC-ATPase subunit interface; other site 1030009007513 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1030009007514 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 1030009007515 dimer interface [polypeptide binding]; other site 1030009007516 conserved gate region; other site 1030009007517 putative PBP binding loops; other site 1030009007518 ABC-ATPase subunit interface; other site 1030009007519 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1030009007520 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 1030009007521 substrate binding pocket [chemical binding]; other site 1030009007522 membrane-bound complex binding site; other site 1030009007523 hinge residues; other site 1030009007524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009007525 Coenzyme A binding pocket [chemical binding]; other site 1030009007526 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1030009007527 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1030009007528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1030009007529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1030009007530 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 1030009007531 dimerization interface [polypeptide binding]; other site 1030009007532 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1030009007533 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1030009007534 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 1030009007535 active site 1030009007536 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 1030009007537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009007538 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 1030009007539 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1030009007540 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1030009007541 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 1030009007542 active site 1030009007543 trimer interface [polypeptide binding]; other site 1030009007544 allosteric site; other site 1030009007545 active site lid [active] 1030009007546 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1030009007547 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009007548 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 1030009007549 Predicted membrane protein [Function unknown]; Region: COG1511 1030009007550 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1030009007551 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1030009007552 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1030009007553 Predicted transcriptional regulator [Transcription]; Region: COG1959 1030009007554 Transcriptional regulator; Region: Rrf2; pfam02082 1030009007555 Macro domain, Poa1p_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 ADP-ribose...; Region: Macro_Poa1p_like; cd02901 1030009007556 ADP-ribose binding site [chemical binding]; other site 1030009007557 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 1030009007558 L-tyrosine decarboxylase; Provisional; Region: PRK13520 1030009007559 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 1030009007560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009007561 catalytic residue [active] 1030009007562 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1030009007563 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009007564 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1030009007565 Macro domain, Poa1p_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 ADP-ribose...; Region: Macro_Poa1p_like; cd02901 1030009007566 ADP-ribose binding site [chemical binding]; other site 1030009007567 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 1030009007568 active site 1030009007569 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1030009007570 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1030009007571 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1030009007572 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1030009007573 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 1030009007574 active site 1030009007575 dimer interface [polypeptide binding]; other site 1030009007576 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 1030009007577 dimer interface [polypeptide binding]; other site 1030009007578 active site 1030009007579 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 1030009007580 nudix motif; other site 1030009007581 general stress protein 13; Validated; Region: PRK08059 1030009007582 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 1030009007583 RNA binding site [nucleotide binding]; other site 1030009007584 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1030009007585 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 1030009007586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009007587 homodimer interface [polypeptide binding]; other site 1030009007588 catalytic residue [active] 1030009007589 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1030009007590 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009007591 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009007592 Walker A/P-loop; other site 1030009007593 ATP binding site [chemical binding]; other site 1030009007594 Q-loop/lid; other site 1030009007595 ABC transporter signature motif; other site 1030009007596 Walker B; other site 1030009007597 D-loop; other site 1030009007598 H-loop/switch region; other site 1030009007599 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 1030009007600 active site 1030009007601 P-loop; other site 1030009007602 phosphorylation site [posttranslational modification] 1030009007603 aspartate kinase; Reviewed; Region: PRK09034 1030009007604 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 1030009007605 putative catalytic residues [active] 1030009007606 putative nucleotide binding site [chemical binding]; other site 1030009007607 putative aspartate binding site [chemical binding]; other site 1030009007608 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 1030009007609 allosteric regulatory residue; other site 1030009007610 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 1030009007611 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1030009007612 putative active site [active] 1030009007613 putative NTP binding site [chemical binding]; other site 1030009007614 putative nucleic acid binding site [nucleotide binding]; other site 1030009007615 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 1030009007616 active site 1030009007617 drug efflux system protein MdtG; Provisional; Region: PRK09874 1030009007618 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 1030009007619 putative substrate translocation pore; other site 1030009007620 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 1030009007621 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1030009007622 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1030009007623 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1030009007624 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 1030009007625 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 1030009007626 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1030009007627 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 1030009007628 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 1030009007629 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12585 1030009007630 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 1030009007631 CoenzymeA binding site [chemical binding]; other site 1030009007632 subunit interaction site [polypeptide binding]; other site 1030009007633 PHB binding site; other site 1030009007634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1963 1030009007635 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1030009007636 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 1030009007637 Cl- selectivity filter; other site 1030009007638 Cl- binding residues [ion binding]; other site 1030009007639 pore gating glutamate residue; other site 1030009007640 dimer interface [polypeptide binding]; other site 1030009007641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 1030009007642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 1030009007643 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1030009007644 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009007645 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1030009007646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1030009007647 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009007648 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1030009007649 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1030009007650 NAD(P) binding site [chemical binding]; other site 1030009007651 putative active site [active] 1030009007652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4844 1030009007653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4837 1030009007654 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 1030009007655 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1030009007656 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007657 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007658 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007659 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007660 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007661 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1030009007662 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1030009007663 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1030009007664 tetramer interfaces [polypeptide binding]; other site 1030009007665 binuclear metal-binding site [ion binding]; other site 1030009007666 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1030009007667 Domain of unknown function DUF21; Region: DUF21; pfam01595 1030009007668 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 1030009007669 Transporter associated domain; Region: CorC_HlyC; smart01091 1030009007670 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1030009007671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009007672 Coenzyme A binding pocket [chemical binding]; other site 1030009007673 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1030009007674 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 1030009007675 active site 1030009007676 motif I; other site 1030009007677 motif II; other site 1030009007678 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 1030009007679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 1030009007680 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1030009007681 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1030009007682 active site 1030009007683 metal binding site [ion binding]; metal-binding site 1030009007684 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1030009007685 Predicted permeases [General function prediction only]; Region: COG0730 1030009007686 Predicted membrane protein [Function unknown]; Region: COG4272 1030009007687 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1030009007688 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1030009007689 FeS assembly protein SufB; Region: sufB; TIGR01980 1030009007690 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1030009007691 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1030009007692 trimerization site [polypeptide binding]; other site 1030009007693 active site 1030009007694 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1030009007695 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 1030009007696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1030009007697 catalytic residue [active] 1030009007698 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1030009007699 FeS assembly protein SufD; Region: sufD; TIGR01981 1030009007700 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1030009007701 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1030009007702 Walker A/P-loop; other site 1030009007703 ATP binding site [chemical binding]; other site 1030009007704 Q-loop/lid; other site 1030009007705 ABC transporter signature motif; other site 1030009007706 Walker B; other site 1030009007707 D-loop; other site 1030009007708 H-loop/switch region; other site 1030009007709 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1030009007710 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1030009007711 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 1030009007712 ABC-ATPase subunit interface; other site 1030009007713 putative PBP binding loops; other site 1030009007714 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1030009007715 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1030009007716 Walker A/P-loop; other site 1030009007717 ATP binding site [chemical binding]; other site 1030009007718 Q-loop/lid; other site 1030009007719 ABC transporter signature motif; other site 1030009007720 Walker B; other site 1030009007721 D-loop; other site 1030009007722 H-loop/switch region; other site 1030009007723 NIL domain; Region: NIL; pfam09383 1030009007724 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 1030009007725 dimer interface [polypeptide binding]; other site 1030009007726 phosphorylation site [posttranslational modification] 1030009007727 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 1030009007728 ATP binding site [chemical binding]; other site 1030009007729 Mg2+ binding site [ion binding]; other site 1030009007730 G-X-G motif; other site 1030009007731 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009007732 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 1030009007733 active site 1030009007734 phosphorylation site [posttranslational modification] 1030009007735 intermolecular recognition site; other site 1030009007736 dimerization interface [polypeptide binding]; other site 1030009007737 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 1030009007738 DNA binding site [nucleotide binding] 1030009007739 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1030009007740 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1030009007741 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 1030009007742 catalytic residues [active] 1030009007743 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 1030009007744 lipoyl attachment site [posttranslational modification]; other site 1030009007745 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 1030009007746 ArsC family; Region: ArsC; pfam03960 1030009007747 putative ArsC-like catalytic residues; other site 1030009007748 putative TRX-like catalytic residues [active] 1030009007749 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1030009007750 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1030009007751 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1030009007752 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1030009007753 Walker A/P-loop; other site 1030009007754 ATP binding site [chemical binding]; other site 1030009007755 Q-loop/lid; other site 1030009007756 ABC transporter signature motif; other site 1030009007757 Walker B; other site 1030009007758 D-loop; other site 1030009007759 H-loop/switch region; other site 1030009007760 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1030009007761 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 1030009007762 ABC-ATPase subunit interface; other site 1030009007763 dimer interface [polypeptide binding]; other site 1030009007764 putative PBP binding regions; other site 1030009007765 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 1030009007766 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1030009007767 intersubunit interface [polypeptide binding]; other site 1030009007768 Predicted esterase [General function prediction only]; Region: COG0627 1030009007769 S-formylglutathione hydrolase; Region: PLN02442 1030009007770 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 1030009007771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009007772 catalytic residue [active] 1030009007773 SdpI/YhfL protein family; Region: SdpI; pfam13630 1030009007774 CAT RNA binding domain; Region: CAT_RBD; smart01061 1030009007775 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1030009007776 PRD domain; Region: PRD; pfam00874 1030009007777 PRD domain; Region: PRD; pfam00874 1030009007778 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 1030009007779 Uncharacterized conserved protein [Function unknown]; Region: COG4283 1030009007780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 1030009007781 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1030009007782 Predicted transcriptional regulator [Transcription]; Region: COG2378 1030009007783 HTH domain; Region: HTH_11; pfam08279 1030009007784 WYL domain; Region: WYL; pfam13280 1030009007785 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1030009007786 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 1030009007787 putative active site [active] 1030009007788 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 1030009007789 Leucine rich repeat; Region: LRR_8; pfam13855 1030009007790 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1030009007791 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 1030009007792 active site 1030009007793 catalytic site [active] 1030009007794 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 1030009007795 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 1030009007796 putative metal binding site [ion binding]; other site 1030009007797 Bacterial adhesion/invasion protein N terminal; Region: Internalin_N; pfam12354 1030009007798 Leucine rich repeat; Region: LRR_8; pfam13855 1030009007799 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1030009007800 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1030009007801 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 1030009007802 active site 1030009007803 catalytic site [active] 1030009007804 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 1030009007805 putative metal binding site [ion binding]; other site 1030009007806 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 1030009007807 non-specific DNA binding site [nucleotide binding]; other site 1030009007808 salt bridge; other site 1030009007809 sequence-specific DNA binding site [nucleotide binding]; other site 1030009007810 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1030009007811 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1030009007812 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 1030009007813 SmpB-tmRNA interface; other site 1030009007814 ribonuclease R; Region: RNase_R; TIGR02063 1030009007815 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1030009007816 RNB domain; Region: RNB; pfam00773 1030009007817 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 1030009007818 RNA binding site [nucleotide binding]; other site 1030009007819 Esterase/lipase [General function prediction only]; Region: COG1647 1030009007820 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1030009007821 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1030009007822 Preprotein translocase SecG subunit; Region: SecG; cl09123 1030009007823 Esterase/lipase [General function prediction only]; Region: COG1647 1030009007824 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1030009007825 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1030009007826 PGAP1-like protein; Region: PGAP1; pfam07819 1030009007827 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1030009007828 enolase; Provisional; Region: eno; PRK00077 1030009007829 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 1030009007830 dimer interface [polypeptide binding]; other site 1030009007831 metal binding site [ion binding]; metal-binding site 1030009007832 substrate binding pocket [chemical binding]; other site 1030009007833 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1030009007834 phosphoglyceromutase; Provisional; Region: PRK05434 1030009007835 triosephosphate isomerase; Provisional; Region: PRK14567 1030009007836 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 1030009007837 substrate binding site [chemical binding]; other site 1030009007838 dimer interface [polypeptide binding]; other site 1030009007839 catalytic triad [active] 1030009007840 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 1030009007841 Phosphoglycerate kinase; Region: PGK; pfam00162 1030009007842 substrate binding site [chemical binding]; other site 1030009007843 hinge regions; other site 1030009007844 ADP binding site [chemical binding]; other site 1030009007845 catalytic site [active] 1030009007846 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1030009007847 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1030009007848 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1030009007849 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1030009007850 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1030009007851 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 1030009007852 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1030009007853 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1030009007854 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009007855 DNA binding site [nucleotide binding] 1030009007856 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1030009007857 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 1030009007858 active site 1030009007859 dimer interface [polypeptide binding]; other site 1030009007860 MMPL family; Region: MMPL; pfam03176 1030009007861 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1030009007862 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009007863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009007864 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 1030009007865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 1030009007866 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1030009007867 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 1030009007868 Interdomain contacts; other site 1030009007869 Cytokine receptor motif; other site 1030009007870 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1030009007871 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 1030009007872 Interdomain contacts; other site 1030009007873 Cytokine receptor motif; other site 1030009007874 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1030009007875 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1030009007876 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1030009007877 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1030009007878 Clp protease; Region: CLP_protease; pfam00574 1030009007879 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1030009007880 oligomer interface [polypeptide binding]; other site 1030009007881 active site residues [active] 1030009007882 amino acid transporter; Region: 2A0306; TIGR00909 1030009007883 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1030009007884 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1030009007885 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 1030009007886 active site 1030009007887 FMN binding site [chemical binding]; other site 1030009007888 substrate binding site [chemical binding]; other site 1030009007889 homotetramer interface [polypeptide binding]; other site 1030009007890 catalytic residue [active] 1030009007891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1030009007892 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1030009007893 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1030009007894 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1030009007895 phosphate binding site [ion binding]; other site 1030009007896 putative substrate binding pocket [chemical binding]; other site 1030009007897 dimer interface [polypeptide binding]; other site 1030009007898 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1030009007899 AAA domain; Region: AAA_18; pfam13238 1030009007900 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1030009007901 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 1030009007902 active site 1030009007903 substrate binding site [chemical binding]; other site 1030009007904 metal binding site [ion binding]; metal-binding site 1030009007905 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1030009007906 active site 1030009007907 catalytic residues [active] 1030009007908 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1030009007909 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1030009007910 NAD binding site [chemical binding]; other site 1030009007911 homodimer interface [polypeptide binding]; other site 1030009007912 active site 1030009007913 substrate binding site [chemical binding]; other site 1030009007914 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1030009007915 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1030009007916 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009007917 TPR repeat; Region: TPR_11; pfam13414 1030009007918 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 1030009007919 binding surface 1030009007920 TPR motif; other site 1030009007921 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1030009007922 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 1030009007923 binding surface 1030009007924 TPR motif; other site 1030009007925 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1030009007926 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 1030009007927 putative trimer interface [polypeptide binding]; other site 1030009007928 putative CoA binding site [chemical binding]; other site 1030009007929 pyrophosphatase PpaX; Provisional; Region: PRK13288 1030009007930 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1030009007931 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 1030009007932 motif II; other site 1030009007933 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1030009007934 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1030009007935 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1030009007936 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 1030009007937 Hpr binding site; other site 1030009007938 active site 1030009007939 homohexamer subunit interaction site [polypeptide binding]; other site 1030009007940 Predicted membrane protein [Function unknown]; Region: COG1950 1030009007941 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1030009007942 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1030009007943 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1030009007944 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1030009007945 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1030009007946 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1030009007947 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1030009007948 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1030009007949 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1030009007950 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1030009007951 excinuclease ABC subunit B; Provisional; Region: PRK05298 1030009007952 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 1030009007953 ATP binding site [chemical binding]; other site 1030009007954 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 1030009007955 nucleotide binding region [chemical binding]; other site 1030009007956 ATP-binding site [chemical binding]; other site 1030009007957 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1030009007958 UvrB/uvrC motif; Region: UVR; pfam02151 1030009007959 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 1030009007960 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009007961 Zn2+ binding site [ion binding]; other site 1030009007962 Mg2+ binding site [ion binding]; other site 1030009007963 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 1030009007964 dimerization interface [polypeptide binding]; other site 1030009007965 putative DNA binding site [nucleotide binding]; other site 1030009007966 putative Zn2+ binding site [ion binding]; other site 1030009007967 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1030009007968 PhoU domain; Region: PhoU; pfam01895 1030009007969 PhoU domain; Region: PhoU; pfam01895 1030009007970 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1030009007971 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1030009007972 Walker A/P-loop; other site 1030009007973 ATP binding site [chemical binding]; other site 1030009007974 Q-loop/lid; other site 1030009007975 ABC transporter signature motif; other site 1030009007976 Walker B; other site 1030009007977 D-loop; other site 1030009007978 H-loop/switch region; other site 1030009007979 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1030009007980 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1030009007981 Walker A/P-loop; other site 1030009007982 ATP binding site [chemical binding]; other site 1030009007983 Q-loop/lid; other site 1030009007984 ABC transporter signature motif; other site 1030009007985 Walker B; other site 1030009007986 D-loop; other site 1030009007987 H-loop/switch region; other site 1030009007988 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1030009007989 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 1030009007990 dimer interface [polypeptide binding]; other site 1030009007991 conserved gate region; other site 1030009007992 putative PBP binding loops; other site 1030009007993 ABC-ATPase subunit interface; other site 1030009007994 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1030009007995 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 1030009007996 dimer interface [polypeptide binding]; other site 1030009007997 conserved gate region; other site 1030009007998 putative PBP binding loops; other site 1030009007999 ABC-ATPase subunit interface; other site 1030009008000 PBP superfamily domain; Region: PBP_like_2; cl17296 1030009008001 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1030009008002 HAMP domain; Region: HAMP; pfam00672 1030009008003 dimerization interface [polypeptide binding]; other site 1030009008004 PAS domain; Region: PAS; smart00091 1030009008005 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1030009008006 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 1030009008007 dimer interface [polypeptide binding]; other site 1030009008008 phosphorylation site [posttranslational modification] 1030009008009 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 1030009008010 ATP binding site [chemical binding]; other site 1030009008011 Mg2+ binding site [ion binding]; other site 1030009008012 G-X-G motif; other site 1030009008013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009008014 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 1030009008015 active site 1030009008016 phosphorylation site [posttranslational modification] 1030009008017 intermolecular recognition site; other site 1030009008018 dimerization interface [polypeptide binding]; other site 1030009008019 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 1030009008020 DNA binding site [nucleotide binding] 1030009008021 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1030009008022 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 1030009008023 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1030009008024 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1030009008025 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1030009008026 putative active site [active] 1030009008027 catalytic site [active] 1030009008028 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1030009008029 putative active site [active] 1030009008030 catalytic site [active] 1030009008031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1030009008032 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1030009008033 Peptidase family M23; Region: Peptidase_M23; pfam01551 1030009008034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1030009008035 NlpC/P60 family; Region: NLPC_P60; pfam00877 1030009008036 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1030009008037 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1030009008038 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1030009008039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009008040 Walker A/P-loop; other site 1030009008041 ATP binding site [chemical binding]; other site 1030009008042 Q-loop/lid; other site 1030009008043 ABC transporter signature motif; other site 1030009008044 Walker B; other site 1030009008045 D-loop; other site 1030009008046 H-loop/switch region; other site 1030009008047 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1030009008048 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1030009008049 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1030009008050 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1030009008051 peptide chain release factor 2; Provisional; Region: PRK06746 1030009008052 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1030009008053 RF-1 domain; Region: RF-1; pfam00472 1030009008054 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1030009008055 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1030009008056 nucleotide binding region [chemical binding]; other site 1030009008057 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1030009008058 ATP-binding site [chemical binding]; other site 1030009008059 SEC-C motif; Region: SEC-C; pfam02810 1030009008060 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 1030009008061 30S subunit binding site; other site 1030009008062 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1030009008063 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009008064 active site 1030009008065 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1030009008066 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 1030009008067 ATP binding site [chemical binding]; other site 1030009008068 putative Mg++ binding site [ion binding]; other site 1030009008069 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 1030009008070 nucleotide binding region [chemical binding]; other site 1030009008071 ATP-binding site [chemical binding]; other site 1030009008072 EDD domain protein, DegV family; Region: DegV; TIGR00762 1030009008073 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1030009008074 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1030009008075 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 1030009008076 active site 1030009008077 phosphorylation site [posttranslational modification] 1030009008078 intermolecular recognition site; other site 1030009008079 dimerization interface [polypeptide binding]; other site 1030009008080 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 1030009008081 DNA binding residues [nucleotide binding] 1030009008082 dimerization interface [polypeptide binding]; other site 1030009008083 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1030009008084 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1030009008085 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1030009008086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1030009008087 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1030009008088 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1030009008089 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1030009008090 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 1030009008091 Mg++ binding site [ion binding]; other site 1030009008092 putative catalytic motif [active] 1030009008093 substrate binding site [chemical binding]; other site 1030009008094 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 1030009008095 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 1030009008096 active site 1030009008097 octamer interface [polypeptide binding]; other site 1030009008098 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1030009008099 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 1030009008100 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009008101 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1030009008102 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009008103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1030009008104 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1030009008105 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 1030009008106 dimer interface [polypeptide binding]; other site 1030009008107 ssDNA binding site [nucleotide binding]; other site 1030009008108 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009008109 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 1030009008110 rod shape-determining protein Mbl; Provisional; Region: PRK13928 1030009008111 MreB and similar proteins; Region: MreB_like; cd10225 1030009008112 nucleotide binding site [chemical binding]; other site 1030009008113 Mg binding site [ion binding]; other site 1030009008114 putative protofilament interaction site [polypeptide binding]; other site 1030009008115 RodZ interaction site [polypeptide binding]; other site 1030009008116 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1030009008117 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 1030009008118 hinge; other site 1030009008119 active site 1030009008120 Predicted membrane protein [Function unknown]; Region: COG4836 1030009008121 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1030009008122 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1030009008123 gamma subunit interface [polypeptide binding]; other site 1030009008124 epsilon subunit interface [polypeptide binding]; other site 1030009008125 LBP interface [polypeptide binding]; other site 1030009008126 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1030009008127 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1030009008128 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 1030009008129 alpha subunit interaction interface [polypeptide binding]; other site 1030009008130 Walker A motif; other site 1030009008131 ATP binding site [chemical binding]; other site 1030009008132 Walker B motif; other site 1030009008133 inhibitor binding site; inhibition site 1030009008134 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1030009008135 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1030009008136 core domain interface [polypeptide binding]; other site 1030009008137 delta subunit interface [polypeptide binding]; other site 1030009008138 epsilon subunit interface [polypeptide binding]; other site 1030009008139 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1030009008140 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1030009008141 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 1030009008142 beta subunit interaction interface [polypeptide binding]; other site 1030009008143 Walker A motif; other site 1030009008144 ATP binding site [chemical binding]; other site 1030009008145 Walker B motif; other site 1030009008146 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1030009008147 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1030009008148 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1030009008149 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1030009008150 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1030009008151 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1030009008152 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1030009008153 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1030009008154 ATP synthase I chain; Region: ATP_synt_I; pfam03899 1030009008155 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1030009008156 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 1030009008157 active site 1030009008158 homodimer interface [polypeptide binding]; other site 1030009008159 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1030009008160 active site 1030009008161 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1030009008162 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 1030009008163 dimer interface [polypeptide binding]; other site 1030009008164 active site 1030009008165 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1030009008166 folate binding site [chemical binding]; other site 1030009008167 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1030009008168 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1030009008169 active site 1030009008170 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1030009008171 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1030009008172 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1030009008173 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 1030009008174 S-adenosylmethionine binding site [chemical binding]; other site 1030009008175 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1030009008176 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1030009008177 RF-1 domain; Region: RF-1; pfam00472 1030009008178 thymidine kinase; Provisional; Region: PRK04296 1030009008179 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 1030009008180 ATP binding site [chemical binding]; other site 1030009008181 Walker A motif; other site 1030009008182 Walker B motif; other site 1030009008183 homoserine kinase; Provisional; Region: PRK01212 1030009008184 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1030009008185 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1030009008186 threonine synthase; Reviewed; Region: PRK06721 1030009008187 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 1030009008188 homodimer interface [polypeptide binding]; other site 1030009008189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009008190 catalytic residue [active] 1030009008191 homoserine dehydrogenase; Provisional; Region: PRK06349 1030009008192 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1030009008193 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1030009008194 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 1030009008195 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1030009008196 Predicted membrane protein [Function unknown]; Region: COG2246 1030009008197 GtrA-like protein; Region: GtrA; pfam04138 1030009008198 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1030009008199 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1030009008200 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 1030009008201 RNA binding site [nucleotide binding]; other site 1030009008202 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 1030009008203 multimer interface [polypeptide binding]; other site 1030009008204 Walker A motif; other site 1030009008205 ATP binding site [chemical binding]; other site 1030009008206 Walker B motif; other site 1030009008207 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1030009008208 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 1030009008209 hinge; other site 1030009008210 active site 1030009008211 Predicted integral membrane protein [Function unknown]; Region: COG0392 1030009008212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1030009008213 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 1030009008214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1030009008215 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 1030009008216 putative ADP-binding pocket [chemical binding]; other site 1030009008217 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1030009008218 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 1030009008219 intersubunit interface [polypeptide binding]; other site 1030009008220 active site 1030009008221 zinc binding site [ion binding]; other site 1030009008222 Na+ binding site [ion binding]; other site 1030009008223 putative lipid kinase; Reviewed; Region: PRK13055 1030009008224 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1030009008225 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 1030009008226 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 1030009008227 amidase catalytic site [active] 1030009008228 Zn binding residues [ion binding]; other site 1030009008229 substrate binding site [chemical binding]; other site 1030009008230 SH3-like domain; Region: SH3_8; pfam13457 1030009008231 SH3-like domain; Region: SH3_8; pfam13457 1030009008232 CTP synthetase; Validated; Region: pyrG; PRK05380 1030009008233 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 1030009008234 Catalytic site [active] 1030009008235 active site 1030009008236 UTP binding site [chemical binding]; other site 1030009008237 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1030009008238 active site 1030009008239 putative oxyanion hole; other site 1030009008240 catalytic triad [active] 1030009008241 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1030009008242 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1030009008243 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1030009008244 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1030009008245 active site 1030009008246 HIGH motif; other site 1030009008247 KMSK motif region; other site 1030009008248 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1030009008249 tRNA binding surface [nucleotide binding]; other site 1030009008250 anticodon binding site; other site 1030009008251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4506 1030009008252 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 1030009008253 Peptidase family M50; Region: Peptidase_M50; pfam02163 1030009008254 active site 1030009008255 putative substrate binding region [chemical binding]; other site 1030009008256 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 1030009008257 active site 1 [active] 1030009008258 dimer interface [polypeptide binding]; other site 1030009008259 hexamer interface [polypeptide binding]; other site 1030009008260 active site 2 [active] 1030009008261 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1030009008262 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009008263 Zn2+ binding site [ion binding]; other site 1030009008264 Mg2+ binding site [ion binding]; other site 1030009008265 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1030009008266 conserved hypothetical protein TIGR01655; Region: yxeA_fam 1030009008267 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1030009008268 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1030009008269 peptide binding site [polypeptide binding]; other site 1030009008270 Predicted integral membrane protein [Function unknown]; Region: COG5658 1030009008271 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1030009008272 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 1030009008273 catalytic triad [active] 1030009008274 metal binding site [ion binding]; metal-binding site 1030009008275 conserved cis-peptide bond; other site 1030009008276 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 1030009008277 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1030009008278 folate binding site [chemical binding]; other site 1030009008279 NADP+ binding site [chemical binding]; other site 1030009008280 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1030009008281 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1030009008282 putative NAD(P) binding site [chemical binding]; other site 1030009008283 dimer interface [polypeptide binding]; other site 1030009008284 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1030009008285 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1030009008286 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009008287 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 1030009008288 active site 1030009008289 motif I; other site 1030009008290 motif II; other site 1030009008291 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 1030009008292 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1030009008293 Leucine rich repeat; Region: LRR_8; pfam13855 1030009008294 LRR adjacent; Region: LRR_adjacent; pfam08191 1030009008295 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 1030009008296 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008297 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008298 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008299 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008300 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008301 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008302 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008303 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008304 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1030009008305 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1030009008306 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009008307 Walker A/P-loop; other site 1030009008308 ATP binding site [chemical binding]; other site 1030009008309 Q-loop/lid; other site 1030009008310 ABC transporter signature motif; other site 1030009008311 Walker B; other site 1030009008312 D-loop; other site 1030009008313 H-loop/switch region; other site 1030009008314 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1030009008315 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1030009008316 FtsX-like permease family; Region: FtsX; pfam02687 1030009008317 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 1030009008318 dimerization interface [polypeptide binding]; other site 1030009008319 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 1030009008320 dimer interface [polypeptide binding]; other site 1030009008321 phosphorylation site [posttranslational modification] 1030009008322 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 1030009008323 ATP binding site [chemical binding]; other site 1030009008324 Mg2+ binding site [ion binding]; other site 1030009008325 G-X-G motif; other site 1030009008326 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009008327 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 1030009008328 active site 1030009008329 phosphorylation site [posttranslational modification] 1030009008330 intermolecular recognition site; other site 1030009008331 dimerization interface [polypeptide binding]; other site 1030009008332 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 1030009008333 DNA binding site [nucleotide binding] 1030009008334 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1030009008335 Uncharacterized conserved protein [Function unknown]; Region: COG2427 1030009008336 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1030009008337 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 1030009008338 catalytic loop [active] 1030009008339 iron binding site [ion binding]; other site 1030009008340 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1030009008341 4Fe-4S binding domain; Region: Fer4; pfam00037 1030009008342 4Fe-4S binding domain; Region: Fer4; pfam00037 1030009008343 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 1030009008344 [4Fe-4S] binding site [ion binding]; other site 1030009008345 molybdopterin cofactor binding site; other site 1030009008346 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 1030009008347 molybdopterin cofactor binding site; other site 1030009008348 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1030009008349 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 1030009008350 putative substrate translocation pore; other site 1030009008351 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 1030009008352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009008353 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009008354 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1030009008355 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 1030009008356 Walker A motif; other site 1030009008357 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1030009008358 SH3-like domain; Region: SH3_8; pfam13457 1030009008359 SH3-like domain; Region: SH3_8; pfam13457 1030009008360 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 1030009008361 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009008362 active site 1030009008363 catalytic tetrad [active] 1030009008364 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009008365 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009008366 DNA binding residues [nucleotide binding] 1030009008367 putative dimer interface [polypeptide binding]; other site 1030009008368 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 1030009008369 active site 1030009008370 metal binding site [ion binding]; metal-binding site 1030009008371 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1030009008372 Bacteriophage holin; Region: Phage_holin_1; pfam04531 1030009008373 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 1030009008374 putative pectinesterase; Region: PLN02432; cl01911 1030009008375 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 1030009008376 Phage tail protein; Region: Sipho_tail; pfam05709 1030009008377 tape measure domain; Region: tape_meas_nterm; TIGR02675 1030009008378 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 1030009008379 Phage protein Gp14; Region: Phage_Gp14; pfam10666 1030009008380 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1030009008381 Minor capsid protein from bacteriophage; Region: Minor_capsid_3; pfam12691 1030009008382 Minor capsid protein; Region: Minor_capsid_2; pfam11114 1030009008383 Minor capsid protein; Region: Minor_capsid_1; pfam10665 1030009008384 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 1030009008385 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1030009008386 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 1030009008387 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 1030009008388 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1030009008389 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 1030009008390 Phage terminase large subunit; Region: Terminase_3; cl12054 1030009008391 Terminase-like family; Region: Terminase_6; pfam03237 1030009008392 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 1030009008393 SprT-like family; Region: SprT-like; pfam10263 1030009008394 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1030009008395 Protein of unknown function (DUF2481); Region: DUF2481; pfam10654 1030009008396 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 1030009008397 NUMOD4 motif; Region: NUMOD4; pfam07463 1030009008398 HNH endonuclease; Region: HNH_3; pfam13392 1030009008399 NUMOD1 domain; Region: NUMOD1; pfam07453 1030009008400 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1030009008401 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 1030009008402 dimer interface [polypeptide binding]; other site 1030009008403 ssDNA binding site [nucleotide binding]; other site 1030009008404 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1030009008405 Domain of Unknown Function with PDB structure (DUF3850); Region: DUF3850; pfam12961 1030009008406 chaperone protein DnaJ; Provisional; Region: PRK14291 1030009008407 YopX protein; Region: YopX; cl09859 1030009008408 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 1030009008409 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 1030009008410 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1030009008411 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 1030009008412 Recombinational DNA repair protein (RecE pathway) [DNA replication, recombination, and repair]; Region: RecT; COG3723 1030009008413 Phage-related protein, predicted endonuclease [DNA replication, recombination, and repair]; Region: COG5377 1030009008414 Protein gp45 of Bacteriophage A118; Region: Phage-A118_gp45; pfam10653 1030009008415 AntA/AntB antirepressor; Region: AntA; pfam08346 1030009008416 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1030009008417 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 1030009008418 non-specific DNA binding site [nucleotide binding]; other site 1030009008419 salt bridge; other site 1030009008420 sequence-specific DNA binding site [nucleotide binding]; other site 1030009008421 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1030009008422 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 1030009008423 sequence-specific DNA binding site [nucleotide binding]; other site 1030009008424 salt bridge; other site 1030009008425 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1030009008426 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 1030009008427 Int/Topo IB signature motif; other site 1030009008428 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1030009008429 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 1030009008430 23S rRNA interface [nucleotide binding]; other site 1030009008431 L3 interface [polypeptide binding]; other site 1030009008432 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1030009008433 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1030009008434 dimerization interface 3.5A [polypeptide binding]; other site 1030009008435 active site 1030009008436 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1030009008437 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 1030009008438 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1030009008439 Walker A/P-loop; other site 1030009008440 ATP binding site [chemical binding]; other site 1030009008441 Q-loop/lid; other site 1030009008442 ABC transporter signature motif; other site 1030009008443 Walker B; other site 1030009008444 D-loop; other site 1030009008445 H-loop/switch region; other site 1030009008446 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 1030009008447 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1030009008448 Walker A/P-loop; other site 1030009008449 ATP binding site [chemical binding]; other site 1030009008450 Q-loop/lid; other site 1030009008451 ABC transporter signature motif; other site 1030009008452 Walker B; other site 1030009008453 D-loop; other site 1030009008454 H-loop/switch region; other site 1030009008455 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1030009008456 MgtC family; Region: MgtC; pfam02308 1030009008457 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1030009008458 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1030009008459 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1030009008460 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1030009008461 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1030009008462 alphaNTD - beta interaction site [polypeptide binding]; other site 1030009008463 alphaNTD homodimer interface [polypeptide binding]; other site 1030009008464 alphaNTD - beta' interaction site [polypeptide binding]; other site 1030009008465 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1030009008466 30S ribosomal protein S11; Validated; Region: PRK05309 1030009008467 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1030009008468 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1030009008469 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1030009008470 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 1030009008471 rRNA binding site [nucleotide binding]; other site 1030009008472 predicted 30S ribosome binding site; other site 1030009008473 adenylate kinase; Reviewed; Region: adk; PRK00279 1030009008474 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 1030009008475 AMP-binding site [chemical binding]; other site 1030009008476 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1030009008477 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1030009008478 SecY translocase; Region: SecY; pfam00344 1030009008479 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1030009008480 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 1030009008481 23S rRNA binding site [nucleotide binding]; other site 1030009008482 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1030009008483 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1030009008484 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1030009008485 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 1030009008486 5S rRNA interface [nucleotide binding]; other site 1030009008487 L27 interface [polypeptide binding]; other site 1030009008488 23S rRNA interface [nucleotide binding]; other site 1030009008489 L5 interface [polypeptide binding]; other site 1030009008490 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1030009008491 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1030009008492 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1030009008493 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1030009008494 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1030009008495 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1030009008496 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1030009008497 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1030009008498 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1030009008499 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1030009008500 RNA binding site [nucleotide binding]; other site 1030009008501 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1030009008502 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1030009008503 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 1030009008504 23S rRNA interface [nucleotide binding]; other site 1030009008505 putative translocon interaction site; other site 1030009008506 signal recognition particle (SRP54) interaction site; other site 1030009008507 L23 interface [polypeptide binding]; other site 1030009008508 trigger factor interaction site; other site 1030009008509 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 1030009008510 23S rRNA interface [nucleotide binding]; other site 1030009008511 5S rRNA interface [nucleotide binding]; other site 1030009008512 putative antibiotic binding site [chemical binding]; other site 1030009008513 L25 interface [polypeptide binding]; other site 1030009008514 L27 interface [polypeptide binding]; other site 1030009008515 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1030009008516 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 1030009008517 G-X-X-G motif; other site 1030009008518 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1030009008519 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 1030009008520 putative translocon binding site; other site 1030009008521 protein-rRNA interface [nucleotide binding]; other site 1030009008522 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1030009008523 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1030009008524 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1030009008525 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1030009008526 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1030009008527 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1030009008528 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1030009008529 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1030009008530 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1030009008531 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 1030009008532 UbiA prenyltransferase family; Region: UbiA; pfam01040 1030009008533 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1030009008534 ApbE family; Region: ApbE; pfam02424 1030009008535 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 1030009008536 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 1030009008537 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 1030009008538 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1030009008539 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1030009008540 Predicted membrane protein [Function unknown]; Region: COG2259 1030009008541 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1030009008542 trimer interface [polypeptide binding]; other site 1030009008543 Predicted membrane protein [Function unknown]; Region: COG4769 1030009008544 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1030009008545 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1030009008546 substrate binding pocket [chemical binding]; other site 1030009008547 chain length determination region; other site 1030009008548 substrate-Mg2+ binding site; other site 1030009008549 catalytic residues [active] 1030009008550 aspartate-rich region 1; other site 1030009008551 active site lid residues [active] 1030009008552 aspartate-rich region 2; other site 1030009008553 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1030009008554 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1030009008555 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1030009008556 active site 1030009008557 metal binding site [ion binding]; metal-binding site 1030009008558 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 1030009008559 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 1030009008560 hypothetical protein; Provisional; Region: PRK02947 1030009008561 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 1030009008562 putative active site [active] 1030009008563 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 1030009008564 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 1030009008565 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 1030009008566 active site 1030009008567 substrate binding pocket [chemical binding]; other site 1030009008568 homodimer interaction site [polypeptide binding]; other site 1030009008569 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1030009008570 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 1030009008571 active site 1030009008572 P-loop; other site 1030009008573 phosphorylation site [posttranslational modification] 1030009008574 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 1030009008575 active site 1030009008576 phosphorylation site [posttranslational modification] 1030009008577 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009008578 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009008579 PRD domain; Region: PRD; pfam00874 1030009008580 PRD domain; Region: PRD; pfam00874 1030009008581 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 1030009008582 active site 1030009008583 P-loop; other site 1030009008584 phosphorylation site [posttranslational modification] 1030009008585 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 1030009008586 active site 1030009008587 phosphorylation site [posttranslational modification] 1030009008588 elongation factor Tu; Reviewed; Region: PRK00049 1030009008589 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1030009008590 G1 box; other site 1030009008591 GEF interaction site [polypeptide binding]; other site 1030009008592 GTP/Mg2+ binding site [chemical binding]; other site 1030009008593 Switch I region; other site 1030009008594 G2 box; other site 1030009008595 G3 box; other site 1030009008596 Switch II region; other site 1030009008597 G4 box; other site 1030009008598 G5 box; other site 1030009008599 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 1030009008600 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 1030009008601 Antibiotic Binding Site [chemical binding]; other site 1030009008602 elongation factor G; Reviewed; Region: PRK00007 1030009008603 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1030009008604 G1 box; other site 1030009008605 putative GEF interaction site [polypeptide binding]; other site 1030009008606 GTP/Mg2+ binding site [chemical binding]; other site 1030009008607 Switch I region; other site 1030009008608 G2 box; other site 1030009008609 G3 box; other site 1030009008610 Switch II region; other site 1030009008611 G4 box; other site 1030009008612 G5 box; other site 1030009008613 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 1030009008614 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 1030009008615 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 1030009008616 30S ribosomal protein S7; Validated; Region: PRK05302 1030009008617 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 1030009008618 S17 interaction site [polypeptide binding]; other site 1030009008619 S8 interaction site; other site 1030009008620 16S rRNA interaction site [nucleotide binding]; other site 1030009008621 streptomycin interaction site [chemical binding]; other site 1030009008622 23S rRNA interaction site [nucleotide binding]; other site 1030009008623 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1030009008624 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1030009008625 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1030009008626 Zn2+ binding site [ion binding]; other site 1030009008627 Mg2+ binding site [ion binding]; other site 1030009008628 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1030009008629 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009008630 Coenzyme A binding pocket [chemical binding]; other site 1030009008631 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1030009008632 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 1030009008633 substrate binding site [chemical binding]; other site 1030009008634 hexamer interface [polypeptide binding]; other site 1030009008635 metal binding site [ion binding]; metal-binding site 1030009008636 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1030009008637 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 1030009008638 TPP-binding site [chemical binding]; other site 1030009008639 dimer interface [polypeptide binding]; other site 1030009008640 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 1030009008641 PYR/PP interface [polypeptide binding]; other site 1030009008642 dimer interface [polypeptide binding]; other site 1030009008643 TPP binding site [chemical binding]; other site 1030009008644 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1030009008645 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 1030009008646 substrate binding site [chemical binding]; other site 1030009008647 hexamer interface [polypeptide binding]; other site 1030009008648 metal binding site [ion binding]; metal-binding site 1030009008649 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1030009008650 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1030009008651 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 1030009008652 putative NAD(P) binding site [chemical binding]; other site 1030009008653 catalytic Zn binding site [ion binding]; other site 1030009008654 structural Zn binding site [ion binding]; other site 1030009008655 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1030009008656 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1030009008657 putative NAD(P) binding site [chemical binding]; other site 1030009008658 catalytic Zn binding site [ion binding]; other site 1030009008659 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1030009008660 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1030009008661 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 1030009008662 active site 1030009008663 P-loop; other site 1030009008664 phosphorylation site [posttranslational modification] 1030009008665 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 1030009008666 active site 1030009008667 phosphorylation site [posttranslational modification] 1030009008668 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009008669 PRD domain; Region: PRD; pfam00874 1030009008670 PRD domain; Region: PRD; pfam00874 1030009008671 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 1030009008672 active site 1030009008673 P-loop; other site 1030009008674 phosphorylation site [posttranslational modification] 1030009008675 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 1030009008676 active site 1030009008677 phosphorylation site [posttranslational modification] 1030009008678 Predicted membrane protein [Function unknown]; Region: COG4905 1030009008679 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1030009008680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1030009008681 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 1030009008682 Ligand Binding Site [chemical binding]; other site 1030009008683 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1030009008684 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1030009008685 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1030009008686 active site 1030009008687 DNA binding site [nucleotide binding] 1030009008688 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1030009008689 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1030009008690 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 1030009008691 active site 1030009008692 phosphorylation site [posttranslational modification] 1030009008693 intermolecular recognition site; other site 1030009008694 dimerization interface [polypeptide binding]; other site 1030009008695 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 1030009008696 DNA binding site [nucleotide binding] 1030009008697 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1030009008698 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1030009008699 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 1030009008700 Ligand Binding Site [chemical binding]; other site 1030009008701 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1030009008702 GAF domain; Region: GAF_3; pfam13492 1030009008703 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 1030009008704 dimer interface [polypeptide binding]; other site 1030009008705 phosphorylation site [posttranslational modification] 1030009008706 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 1030009008707 ATP binding site [chemical binding]; other site 1030009008708 Mg2+ binding site [ion binding]; other site 1030009008709 G-X-G motif; other site 1030009008710 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 1030009008711 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1030009008712 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1030009008713 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1030009008714 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 1030009008715 active site 1030009008716 P-loop; other site 1030009008717 phosphorylation site [posttranslational modification] 1030009008718 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009008719 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009008720 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 1030009008721 methionine cluster; other site 1030009008722 active site 1030009008723 phosphorylation site [posttranslational modification] 1030009008724 metal binding site [ion binding]; metal-binding site 1030009008725 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1030009008726 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1030009008727 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 1030009008728 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1030009008729 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1030009008730 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1030009008731 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1030009008732 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1030009008733 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009008734 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009008735 autolysin; Reviewed; Region: PRK06347 1030009008736 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1030009008737 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009008738 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009008739 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009008740 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1030009008741 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 1030009008742 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1030009008743 Walker A motif; other site 1030009008744 ATP binding site [chemical binding]; other site 1030009008745 Walker B motif; other site 1030009008746 arginine finger; other site 1030009008747 Protein of unknown function (DUF970); Region: DUF970; pfam06153 1030009008748 thymidylate kinase; Validated; Region: tmk; PRK00698 1030009008749 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 1030009008750 TMP-binding site; other site 1030009008751 ATP-binding site [chemical binding]; other site 1030009008752 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1030009008753 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 1030009008754 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1030009008755 catalytic residue [active] 1030009008756 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1030009008757 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1030009008758 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1030009008759 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1030009008760 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1030009008761 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1030009008762 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1030009008763 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1030009008764 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 1030009008765 putative active site [active] 1030009008766 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1030009008767 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 1030009008768 active site 1030009008769 motif I; other site 1030009008770 motif II; other site 1030009008771 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1030009008772 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 1030009008773 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1030009008774 active site 1030009008775 catalytic tetrad [active] 1030009008776 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 1030009008777 recombination protein RecR; Reviewed; Region: recR; PRK00076 1030009008778 RecR protein; Region: RecR; pfam02132 1030009008779 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 1030009008780 putative active site [active] 1030009008781 putative metal-binding site [ion binding]; other site 1030009008782 tetramer interface [polypeptide binding]; other site 1030009008783 hypothetical protein; Validated; Region: PRK00153 1030009008784 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1030009008785 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 1030009008786 Walker A motif; other site 1030009008787 ATP binding site [chemical binding]; other site 1030009008788 Walker B motif; other site 1030009008789 arginine finger; other site 1030009008790 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1030009008791 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 1030009008792 Protein of unknown function (DUF3188); Region: DUF3188; pfam11384 1030009008793 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009008794 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009008795 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1030009008796 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1030009008797 N- and C-terminal domain interface [polypeptide binding]; other site 1030009008798 active site 1030009008799 catalytic site [active] 1030009008800 metal binding site [ion binding]; metal-binding site 1030009008801 carbohydrate binding site [chemical binding]; other site 1030009008802 ATP binding site [chemical binding]; other site 1030009008803 SH3-like domain; Region: SH3_8; pfam13457 1030009008804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1030009008805 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 1030009008806 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009008807 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 1030009008808 Walker A/P-loop; other site 1030009008809 ATP binding site [chemical binding]; other site 1030009008810 Q-loop/lid; other site 1030009008811 ABC transporter signature motif; other site 1030009008812 Walker B; other site 1030009008813 D-loop; other site 1030009008814 H-loop/switch region; other site 1030009008815 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 1030009008816 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009008817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009008818 Walker A/P-loop; other site 1030009008819 ATP binding site [chemical binding]; other site 1030009008820 Q-loop/lid; other site 1030009008821 ABC transporter signature motif; other site 1030009008822 Walker B; other site 1030009008823 D-loop; other site 1030009008824 H-loop/switch region; other site 1030009008825 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1030009008826 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1030009008827 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1030009008828 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1030009008829 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 1030009008830 nucleoside/Zn binding site; other site 1030009008831 dimer interface [polypeptide binding]; other site 1030009008832 catalytic motif [active] 1030009008833 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1030009008834 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 1030009008835 active site 1030009008836 acyl-activating enzyme (AAE) consensus motif; other site 1030009008837 putative CoA binding site [chemical binding]; other site 1030009008838 AMP binding site [chemical binding]; other site 1030009008839 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1030009008840 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 1030009008841 active site 1030009008842 trimer interface [polypeptide binding]; other site 1030009008843 allosteric site; other site 1030009008844 active site lid [active] 1030009008845 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1030009008846 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1030009008847 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1030009008848 DNA binding residues [nucleotide binding] 1030009008849 drug binding residues [chemical binding]; other site 1030009008850 dimer interface [polypeptide binding]; other site 1030009008851 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1030009008852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009008853 Coenzyme A binding pocket [chemical binding]; other site 1030009008854 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 1030009008855 dimer interface [polypeptide binding]; other site 1030009008856 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1030009008857 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1030009008858 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1030009008859 MarR family; Region: MarR; pfam01047 1030009008860 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1030009008861 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1030009008862 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1030009008863 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1030009008864 DNA binding residues [nucleotide binding] 1030009008865 putative dimer interface [polypeptide binding]; other site 1030009008866 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1030009008867 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1030009008868 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 1030009008869 active site 1030009008870 motif I; other site 1030009008871 motif II; other site 1030009008872 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1030009008873 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1030009008874 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 1030009008875 putative active site [active] 1030009008876 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1030009008877 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 1030009008878 active site 1030009008879 phosphorylation site [posttranslational modification] 1030009008880 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 1030009008881 active site 1030009008882 P-loop; other site 1030009008883 phosphorylation site [posttranslational modification] 1030009008884 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1030009008885 alpha-mannosidase; Provisional; Region: PRK09819 1030009008886 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 1030009008887 active site 1030009008888 metal binding site [ion binding]; metal-binding site 1030009008889 catalytic site [active] 1030009008890 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 1030009008891 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 1030009008892 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 1030009008893 active site 1030009008894 homodimer interface [polypeptide binding]; other site 1030009008895 catalytic site [active] 1030009008896 glycerate kinase; Region: TIGR00045 1030009008897 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009008898 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009008899 DNA binding site [nucleotide binding] 1030009008900 domain linker motif; other site 1030009008901 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 1030009008902 putative dimerization interface [polypeptide binding]; other site 1030009008903 putative ligand binding site [chemical binding]; other site 1030009008904 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1030009008905 Domain of unknown function DUF21; Region: DUF21; pfam01595 1030009008906 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 1030009008907 Transporter associated domain; Region: CorC_HlyC; pfam03471 1030009008908 NAD-dependent deacetylase; Provisional; Region: PRK00481 1030009008909 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 1030009008910 NAD+ binding site [chemical binding]; other site 1030009008911 substrate binding site [chemical binding]; other site 1030009008912 putative Zn binding site [ion binding]; other site 1030009008913 Pathogenicity locus; Region: Cdd1; pfam11731 1030009008914 drug efflux system protein MdtG; Provisional; Region: PRK09874 1030009008915 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 1030009008916 putative substrate translocation pore; other site 1030009008917 Variant SH3 domain; Region: SH3_2; pfam07653 1030009008918 Variant SH3 domain; Region: SH3_2; pfam07653 1030009008919 peptide ligand binding site [polypeptide binding]; other site 1030009008920 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1030009008921 active site 1030009008922 intersubunit interactions; other site 1030009008923 catalytic residue [active] 1030009008924 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1030009008925 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1030009008926 ligand binding site [chemical binding]; other site 1030009008927 flexible hinge region; other site 1030009008928 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1030009008929 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009008930 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009008931 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009008932 Walker A/P-loop; other site 1030009008933 ATP binding site [chemical binding]; other site 1030009008934 Q-loop/lid; other site 1030009008935 ABC transporter signature motif; other site 1030009008936 Walker B; other site 1030009008937 D-loop; other site 1030009008938 H-loop/switch region; other site 1030009008939 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1030009008940 seryl-tRNA synthetase; Provisional; Region: PRK05431 1030009008941 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1030009008942 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 1030009008943 dimer interface [polypeptide binding]; other site 1030009008944 active site 1030009008945 motif 1; other site 1030009008946 motif 2; other site 1030009008947 motif 3; other site 1030009008948 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1030009008949 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1030009008950 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1030009008951 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1030009008952 glutamine binding [chemical binding]; other site 1030009008953 catalytic triad [active] 1030009008954 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1030009008955 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1030009008956 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 1030009008957 substrate-cofactor binding pocket; other site 1030009008958 homodimer interface [polypeptide binding]; other site 1030009008959 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1030009008960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1030009008961 catalytic residue [active] 1030009008962 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009008963 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009008964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009008965 Walker A/P-loop; other site 1030009008966 ATP binding site [chemical binding]; other site 1030009008967 Q-loop/lid; other site 1030009008968 ABC transporter signature motif; other site 1030009008969 Walker B; other site 1030009008970 D-loop; other site 1030009008971 H-loop/switch region; other site 1030009008972 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1030009008973 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1030009008974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1030009008975 Walker A/P-loop; other site 1030009008976 ATP binding site [chemical binding]; other site 1030009008977 Q-loop/lid; other site 1030009008978 ABC transporter signature motif; other site 1030009008979 Walker B; other site 1030009008980 D-loop; other site 1030009008981 H-loop/switch region; other site 1030009008982 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1030009008983 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1030009008984 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008985 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008986 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008987 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008988 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008989 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008990 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1030009008991 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008992 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1030009008993 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008994 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008995 RHS Repeat; Region: RHS_repeat; cl11982 1030009008996 RHS Repeat; Region: RHS_repeat; cl11982 1030009008997 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008998 RHS Repeat; Region: RHS_repeat; pfam05593 1030009008999 RHS Repeat; Region: RHS_repeat; pfam05593 1030009009000 RHS Repeat; Region: RHS_repeat; pfam05593 1030009009001 RHS Repeat; Region: RHS_repeat; pfam05593 1030009009002 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1030009009003 RHS Repeat; Region: RHS_repeat; pfam05593 1030009009004 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1030009009005 RHS Repeat; Region: RHS_repeat; pfam05593 1030009009006 RHS Repeat; Region: RHS_repeat; pfam05593 1030009009007 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1030009009008 RHS Repeat; Region: RHS_repeat; pfam05593 1030009009009 RHS Repeat; Region: RHS_repeat; cl11982 1030009009010 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1030009009011 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1030009009012 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1030009009013 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1030009009014 Predicted acyl esterases [General function prediction only]; Region: COG2936 1030009009015 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1030009009016 DNA topoisomerase III; Provisional; Region: PRK07726 1030009009017 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 1030009009018 active site 1030009009019 putative interdomain interaction site [polypeptide binding]; other site 1030009009020 putative metal-binding site [ion binding]; other site 1030009009021 putative nucleotide binding site [chemical binding]; other site 1030009009022 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 1030009009023 domain I; other site 1030009009024 DNA binding groove [nucleotide binding] 1030009009025 phosphate binding site [ion binding]; other site 1030009009026 domain II; other site 1030009009027 domain III; other site 1030009009028 nucleotide binding site [chemical binding]; other site 1030009009029 catalytic site [active] 1030009009030 domain IV; other site 1030009009031 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1030009009032 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1030009009033 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 1030009009034 ATP binding site [chemical binding]; other site 1030009009035 putative Mg++ binding site [ion binding]; other site 1030009009036 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 1030009009037 nucleotide binding region [chemical binding]; other site 1030009009038 ATP-binding site [chemical binding]; other site 1030009009039 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1030009009040 HRDC domain; Region: HRDC; pfam00570 1030009009041 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 1030009009042 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1030009009043 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 1030009009044 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 1030009009045 active site 1030009009046 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 1030009009047 putative ADP-ribose binding site [chemical binding]; other site 1030009009048 putative active site [active] 1030009009049 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1030009009050 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009009051 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009009052 ABC transporter; Region: ABC_tran_2; pfam12848 1030009009053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1030009009054 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1030009009055 beta-galactosidase; Region: BGL; TIGR03356 1030009009056 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 1030009009057 active site 1030009009058 P-loop; other site 1030009009059 phosphorylation site [posttranslational modification] 1030009009060 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1030009009061 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009009062 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009009063 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009009064 nucleotide binding site [chemical binding]; other site 1030009009065 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 1030009009066 methionine cluster; other site 1030009009067 active site 1030009009068 phosphorylation site [posttranslational modification] 1030009009069 metal binding site [ion binding]; metal-binding site 1030009009070 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1030009009071 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1030009009072 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 1030009009073 putative active site [active] 1030009009074 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1030009009075 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1030009009076 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1030009009077 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1030009009078 Walker A/P-loop; other site 1030009009079 ATP binding site [chemical binding]; other site 1030009009080 Q-loop/lid; other site 1030009009081 ABC transporter signature motif; other site 1030009009082 Walker B; other site 1030009009083 D-loop; other site 1030009009084 H-loop/switch region; other site 1030009009085 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1030009009086 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1030009009087 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1030009009088 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1030009009089 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1030009009090 Walker A/P-loop; other site 1030009009091 ATP binding site [chemical binding]; other site 1030009009092 Q-loop/lid; other site 1030009009093 ABC transporter signature motif; other site 1030009009094 Walker B; other site 1030009009095 D-loop; other site 1030009009096 H-loop/switch region; other site 1030009009097 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 1030009009098 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1030009009099 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1030009009100 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 1030009009101 putative substrate translocation pore; other site 1030009009102 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1030009009103 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 1030009009104 GTP-binding protein YchF; Reviewed; Region: PRK09601 1030009009105 YchF GTPase; Region: YchF; cd01900 1030009009106 G1 box; other site 1030009009107 GTP/Mg2+ binding site [chemical binding]; other site 1030009009108 Switch I region; other site 1030009009109 G2 box; other site 1030009009110 Switch II region; other site 1030009009111 G3 box; other site 1030009009112 G4 box; other site 1030009009113 G5 box; other site 1030009009114 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 1030009009115 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 1030009009116 methionine cluster; other site 1030009009117 active site 1030009009118 phosphorylation site [posttranslational modification] 1030009009119 metal binding site [ion binding]; metal-binding site 1030009009120 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1030009009121 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1030009009122 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1030009009123 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 1030009009124 active site 1030009009125 P-loop; other site 1030009009126 phosphorylation site [posttranslational modification] 1030009009127 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1030009009128 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1030009009129 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1030009009130 HTH domain; Region: HTH_11; pfam08279 1030009009131 Mga helix-turn-helix domain; Region: Mga; pfam05043 1030009009132 PRD domain; Region: PRD; pfam00874 1030009009133 PRD domain; Region: PRD; pfam00874 1030009009134 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 1030009009135 active site 1030009009136 P-loop; other site 1030009009137 phosphorylation site [posttranslational modification] 1030009009138 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 1030009009139 active site 1030009009140 phosphorylation site [posttranslational modification] 1030009009141 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1030009009142 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1030009009143 tetramer interface [polypeptide binding]; other site 1030009009144 heme binding pocket [chemical binding]; other site 1030009009145 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1030009009146 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1030009009147 ParB-like nuclease domain; Region: ParB; smart00470 1030009009148 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1030009009149 salt bridge; other site 1030009009150 non-specific DNA binding site [nucleotide binding]; other site 1030009009151 sequence-specific DNA binding site [nucleotide binding]; other site 1030009009152 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1030009009153 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 1030009009154 P-loop; other site 1030009009155 Magnesium ion binding site [ion binding]; other site 1030009009156 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 1030009009157 Magnesium ion binding site [ion binding]; other site 1030009009158 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 1030009009159 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 1030009009160 non-specific DNA binding site [nucleotide binding]; other site 1030009009161 salt bridge; other site 1030009009162 sequence-specific DNA binding site [nucleotide binding]; other site 1030009009163 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1030009009164 ParB-like nuclease domain; Region: ParBc; pfam02195 1030009009165 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1030009009166 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1030009009167 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 1030009009168 putative active site [active] 1030009009169 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1030009009170 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1030009009171 nucleotide binding site [chemical binding]; other site 1030009009172 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 1030009009173 active site 1030009009174 phosphorylation site [posttranslational modification] 1030009009175 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1030009009176 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 1030009009177 motif II; other site 1030009009178 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1030009009179 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1030009009180 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 1030009009181 active site 1030009009182 P-loop; other site 1030009009183 phosphorylation site [posttranslational modification] 1030009009184 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1030009009185 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009009186 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1030009009187 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 1030009009188 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1030009009189 putative active site cavity [active] 1030009009190 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1030009009191 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 1030009009192 S-adenosylmethionine binding site [chemical binding]; other site 1030009009193 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 1030009009194 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1030009009195 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1030009009196 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1030009009197 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1030009009198 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 1030009009199 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1030009009200 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1030009009201 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1030009009202 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1030009009203 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1030009009204 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1030009009205 G1 box; other site 1030009009206 GTP/Mg2+ binding site [chemical binding]; other site 1030009009207 Switch I region; other site 1030009009208 G2 box; other site 1030009009209 Switch II region; other site 1030009009210 G3 box; other site 1030009009211 G4 box; other site 1030009009212 G5 box; other site 1030009009213 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1030009009214 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1030009009215 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1030009009216 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 1030009009217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1030009009218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1030009009219 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1030009009220 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1030009009221 NADP binding site [chemical binding]; other site 1030009009222 homodimer interface [polypeptide binding]; other site 1030009009223 active site 1030009009224 substrate binding site [chemical binding]; other site 1030009009225 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 1030009009226 D-galactonate transporter; Region: 2A0114; TIGR00893 1030009009227 putative substrate translocation pore; other site 1030009009228 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1030009009229 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1030009009230 metal binding site [ion binding]; metal-binding site 1030009009231 dimer interface [polypeptide binding]; other site 1030009009232 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1030009009233 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 1030009009234 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1030009009235 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1030009009236 metal binding site [ion binding]; metal-binding site 1030009009237 dimer interface [polypeptide binding]; other site 1030009009238 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1030009009239 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1030009009240 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 1030009009241 Abi-like protein; Region: Abi_2; pfam07751 1030009009242 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1030009009243 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 1030009009244 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1030009009245 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1030009009246 putative ligand binding site [chemical binding]; other site 1030009009247 putative NAD binding site [chemical binding]; other site 1030009009248 putative catalytic site [active] 1030009009249 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1030009009250 L-serine binding site [chemical binding]; other site 1030009009251 ACT domain interface; other site 1030009009252 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1030009009253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1030009009254 catalytic residue [active] 1030009009255 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 1030009009256 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009009257 putative substrate translocation pore; other site 1030009009258 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1030009009259 MarR family; Region: MarR_2; pfam12802 1030009009260 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 1030009009261 dimer interface [polypeptide binding]; other site 1030009009262 FMN binding site [chemical binding]; other site 1030009009263 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 1030009009264 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1030009009265 catalytic residues [active] 1030009009266 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1030009009267 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1030009009268 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 1030009009269 motif II; other site 1030009009270 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1030009009271 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1030009009272 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1030009009273 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1030009009274 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1030009009275 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1030009009276 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1030009009277 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1030009009278 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1030009009279 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1030009009280 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1030009009281 putative NAD(P) binding site [chemical binding]; other site 1030009009282 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1030009009283 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 1030009009284 dimer interface [polypeptide binding]; other site 1030009009285 conserved gate region; other site 1030009009286 putative PBP binding loops; other site 1030009009287 ABC-ATPase subunit interface; other site 1030009009288 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 1030009009289 dimer interface [polypeptide binding]; other site 1030009009290 conserved gate region; other site 1030009009291 putative PBP binding loops; other site 1030009009292 ABC-ATPase subunit interface; other site 1030009009293 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1030009009294 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1030009009295 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 1030009009296 sucrose phosphorylase; Provisional; Region: PRK13840 1030009009297 active site 1030009009298 homodimer interface [polypeptide binding]; other site 1030009009299 catalytic site [active] 1030009009300 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1030009009301 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1030009009302 DNA binding site [nucleotide binding] 1030009009303 domain linker motif; other site 1030009009304 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 1030009009305 putative dimerization interface [polypeptide binding]; other site 1030009009306 putative ligand binding site [chemical binding]; other site 1030009009307 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1030009009308 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1030009009309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1030009009310 Coenzyme A binding pocket [chemical binding]; other site 1030009009311 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 1030009009312 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009009313 putative substrate translocation pore; other site 1030009009314 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 1030009009315 Domain of unknown function (DUF718); Region: DUF718; cl01281 1030009009316 rhamnulose-1-phosphate aldolase; Region: rhamnu_1P_ald; TIGR02624 1030009009317 intersubunit interface [polypeptide binding]; other site 1030009009318 active site 1030009009319 Zn2+ binding site [ion binding]; other site 1030009009320 L-rhamnose isomerase; Provisional; Region: PRK01076 1030009009321 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1030009009322 N- and C-terminal domain interface [polypeptide binding]; other site 1030009009323 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1030009009324 active site 1030009009325 putative catalytic site [active] 1030009009326 metal binding site [ion binding]; metal-binding site 1030009009327 ATP binding site [chemical binding]; other site 1030009009328 carbohydrate binding site [chemical binding]; other site 1030009009329 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 1030009009330 putative substrate translocation pore; other site 1030009009331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1030009009332 Cupin domain; Region: Cupin_2; pfam07883 1030009009333 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1030009009334 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 1030009009335 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1030009009336 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 1030009009337 G-X-X-G motif; other site 1030009009338 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 1030009009339 RxxxH motif; other site 1030009009340 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1030009009341 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1030009009342 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1030009009343 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399