-- dump date 20140619_044059 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272563000001 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 272563000002 protein motif:HNH endonuclease 272563000003 protein domain:Cytochrome c family heme-binding site signature. 272563000004 Phage capsid family; Region: Phage_capsid; pfam05065 272563000005 protein motif:Phage capsid family 272563000006 CHC2 zinc finger; Region: zf-CHC2; cl17510 272563000007 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272563000008 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 272563000009 ATP binding site [chemical binding]; other site 272563000010 putative Mg++ binding site [ion binding]; other site 272563000011 protein motif:Type III restriction enzyme, res subunit 272563000012 protein domain:ATP/GTP-binding site motif A (P-loop). 272563000013 Protein of unknown function (DUF3782); Region: DUF3782; pfam12644 272563000014 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 272563000015 protein motif:helix-turn-helix motif 272563000016 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 272563000017 DnaA N-terminal domain; Region: DnaA_N; pfam11638 272563000018 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 272563000019 Walker A motif; other site 272563000020 ATP binding site [chemical binding]; other site 272563000021 Walker B motif; other site 272563000022 arginine finger; other site 272563000023 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 272563000024 DnaA box-binding interface [nucleotide binding]; other site 272563000025 DNA polymerase III subunit beta; Validated; Region: PRK05643 272563000026 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 272563000027 putative DNA binding surface [nucleotide binding]; other site 272563000028 dimer interface [polypeptide binding]; other site 272563000029 beta-clamp/clamp loader binding surface; other site 272563000030 beta-clamp/translesion DNA polymerase binding surface; other site 272563000031 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 272563000032 RNA binding surface [nucleotide binding]; other site 272563000033 recombination protein F; Reviewed; Region: recF; PRK00064 272563000034 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 272563000035 Walker A/P-loop; other site 272563000036 ATP binding site [chemical binding]; other site 272563000037 Q-loop/lid; other site 272563000038 ABC transporter signature motif; other site 272563000039 Walker B; other site 272563000040 D-loop; other site 272563000041 H-loop/switch region; other site 272563000042 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 272563000043 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 272563000044 ATP binding site [chemical binding]; other site 272563000045 Mg2+ binding site [ion binding]; other site 272563000046 G-X-G motif; other site 272563000047 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 272563000048 anchoring element; other site 272563000049 dimer interface [polypeptide binding]; other site 272563000050 ATP binding site [chemical binding]; other site 272563000051 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 272563000052 active site 272563000053 putative metal-binding site [ion binding]; other site 272563000054 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272563000055 DNA gyrase subunit A; Validated; Region: PRK05560 272563000056 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 272563000057 CAP-like domain; other site 272563000058 active site 272563000059 primary dimer interface [polypeptide binding]; other site 272563000060 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272563000061 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272563000062 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272563000063 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272563000064 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272563000065 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272563000066 YtxH-like protein; Region: YtxH; pfam12732 272563000067 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 272563000068 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 272563000069 anti sigma factor interaction site; other site 272563000070 regulatory phosphorylation site [posttranslational modification]; other site 272563000071 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 272563000072 ATP binding site [chemical binding]; other site 272563000073 Mg2+ binding site [ion binding]; other site 272563000074 G-X-G motif; other site 272563000075 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 272563000076 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563000077 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272563000078 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 272563000079 DNA binding residues [nucleotide binding] 272563000080 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 272563000081 HTH domain; Region: HTH_11; pfam08279 272563000082 3H domain; Region: 3H; pfam02829 272563000083 Conserved TM helix; Region: TM_helix; pfam05552 272563000084 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272563000085 seryl-tRNA synthetase; Provisional; Region: PRK05431 272563000086 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272563000087 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 272563000088 dimer interface [polypeptide binding]; other site 272563000089 active site 272563000090 motif 1; other site 272563000091 motif 2; other site 272563000092 motif 3; other site 272563000093 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 272563000094 nucleoside/Zn binding site; other site 272563000095 dimer interface [polypeptide binding]; other site 272563000096 catalytic motif [active] 272563000097 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 272563000098 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 272563000099 Walker A motif; other site 272563000100 ATP binding site [chemical binding]; other site 272563000101 Walker B motif; other site 272563000102 arginine finger; other site 272563000103 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 272563000104 hypothetical protein; Validated; Region: PRK00153 272563000105 recombination protein RecR; Reviewed; Region: recR; PRK00076 272563000106 RecR protein; Region: RecR; pfam02132 272563000107 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 272563000108 putative active site [active] 272563000109 putative metal-binding site [ion binding]; other site 272563000110 tetramer interface [polypeptide binding]; other site 272563000111 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 272563000112 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 272563000113 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 272563000114 pyruvate carboxylase; Reviewed; Region: PRK12999 272563000115 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272563000116 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272563000117 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 272563000118 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 272563000119 active site 272563000120 catalytic residues [active] 272563000121 metal binding site [ion binding]; metal-binding site 272563000122 homodimer binding site [polypeptide binding]; other site 272563000123 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 272563000124 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 272563000125 carboxyltransferase (CT) interaction site; other site 272563000126 biotinylation site [posttranslational modification]; other site 272563000127 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 272563000128 elongation factor G; Reviewed; Region: PRK12740 272563000129 G1 box; other site 272563000130 GTP/Mg2+ binding site [chemical binding]; other site 272563000131 G2 box; other site 272563000132 Switch I region; other site 272563000133 G3 box; other site 272563000134 Switch II region; other site 272563000135 G4 box; other site 272563000136 G5 box; other site 272563000137 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 272563000138 Elongation Factor G, domain II; Region: EFG_II; pfam14492 272563000139 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 272563000140 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 272563000141 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 272563000142 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 272563000143 UvrB/uvrC motif; Region: UVR; pfam02151 272563000144 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 272563000145 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 272563000146 ADP binding site [chemical binding]; other site 272563000147 phosphagen binding site; other site 272563000148 substrate specificity loop; other site 272563000149 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 272563000150 Clp amino terminal domain; Region: Clp_N; pfam02861 272563000151 Clp amino terminal domain; Region: Clp_N; pfam02861 272563000152 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 272563000153 Walker A motif; other site 272563000154 ATP binding site [chemical binding]; other site 272563000155 Walker B motif; other site 272563000156 arginine finger; other site 272563000157 UvrB/uvrC motif; Region: UVR; pfam02151 272563000158 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 272563000159 Walker A motif; other site 272563000160 ATP binding site [chemical binding]; other site 272563000161 Walker B motif; other site 272563000162 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 272563000163 DNA repair protein RadA; Provisional; Region: PRK11823 272563000164 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 272563000165 Walker A motif/ATP binding site; other site 272563000166 ATP binding site [chemical binding]; other site 272563000167 Walker B motif; other site 272563000168 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 272563000169 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 272563000170 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 272563000171 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 272563000172 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 272563000173 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 272563000174 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 272563000175 putative active site [active] 272563000176 Cupin domain; Region: Cupin_2; cl17218 272563000177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563000178 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563000179 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 272563000180 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 272563000181 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 272563000182 inhibitor binding site; inhibition site 272563000183 active site 272563000184 MFS/sugar transport protein; Region: MFS_2; pfam13347 272563000185 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 272563000186 putative substrate translocation pore; other site 272563000187 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272563000188 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 272563000189 non-specific DNA interactions [nucleotide binding]; other site 272563000190 DNA binding site [nucleotide binding] 272563000191 sequence specific DNA binding site [nucleotide binding]; other site 272563000192 putative cAMP binding site [chemical binding]; other site 272563000193 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272563000194 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 272563000195 tetramer interface [polypeptide binding]; other site 272563000196 TPP-binding site [chemical binding]; other site 272563000197 heterodimer interface [polypeptide binding]; other site 272563000198 phosphorylation loop region [posttranslational modification] 272563000199 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272563000200 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 272563000201 alpha subunit interface [polypeptide binding]; other site 272563000202 TPP binding site [chemical binding]; other site 272563000203 heterodimer interface [polypeptide binding]; other site 272563000204 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272563000205 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 272563000206 e3 binding domain; Region: E3_binding; pfam02817 272563000207 e3 binding domain; Region: E3_binding; pfam02817 272563000208 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 272563000209 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 272563000210 E3 interaction surface; other site 272563000211 lipoyl attachment site [posttranslational modification]; other site 272563000212 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 272563000213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563000214 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 272563000215 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272563000216 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 272563000217 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563000218 Walker A motif; other site 272563000219 ATP binding site [chemical binding]; other site 272563000220 Walker B motif; other site 272563000221 arginine finger; other site 272563000222 PRD domain; Region: PRD; pfam00874 272563000223 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; cl00025 272563000224 active pocket/dimerization site; other site 272563000225 active site 272563000226 phosphorylation site [posttranslational modification] 272563000227 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 272563000228 active site 272563000229 phosphorylation site [posttranslational modification] 272563000230 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 272563000231 active site 272563000232 phosphorylation site [posttranslational modification] 272563000233 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 272563000234 active site 272563000235 P-loop; other site 272563000236 phosphorylation site [posttranslational modification] 272563000237 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 272563000238 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 272563000239 intersubunit interface [polypeptide binding]; other site 272563000240 active site 272563000241 Zn2+ binding site [ion binding]; other site 272563000242 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 272563000243 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272563000244 substrate binding site; other site 272563000245 dimer interface; other site 272563000246 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 272563000247 homotrimer interaction site [polypeptide binding]; other site 272563000248 zinc binding site [ion binding]; other site 272563000249 CDP-binding sites; other site 272563000250 prolyl-tRNA synthetase; Provisional; Region: PRK09194 272563000251 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 272563000252 dimer interface [polypeptide binding]; other site 272563000253 motif 1; other site 272563000254 active site 272563000255 motif 2; other site 272563000256 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 272563000257 putative deacylase active site [active] 272563000258 motif 3; other site 272563000259 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 272563000260 anticodon binding site; other site 272563000261 prolyl-tRNA synthetase; Provisional; Region: PRK08661 272563000262 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_arch_euk; cd00778 272563000263 dimer interface [polypeptide binding]; other site 272563000264 motif 1; other site 272563000265 active site 272563000266 motif 2; other site 272563000267 motif 3; other site 272563000268 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 272563000269 anticodon binding site; other site 272563000270 zinc-binding site [ion binding]; other site 272563000271 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272563000272 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272563000273 active site 272563000274 HIGH motif; other site 272563000275 KMSKS motif; other site 272563000276 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 272563000277 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272563000278 active site 272563000279 HIGH motif; other site 272563000280 KMSKS motif; other site 272563000281 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272563000282 tRNA binding surface [nucleotide binding]; other site 272563000283 anticodon binding site; other site 272563000284 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 272563000285 active site 272563000286 metal binding site [ion binding]; metal-binding site 272563000287 dimerization interface [polypeptide binding]; other site 272563000288 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 272563000289 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 272563000290 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 272563000291 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 272563000292 YacP-like NYN domain; Region: NYN_YacP; pfam05991 272563000293 RNA polymerase factor sigma-70; Validated; Region: PRK08295 272563000294 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563000295 elongation factor Tu; Reviewed; Region: PRK00049 272563000296 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272563000297 G1 box; other site 272563000298 GEF interaction site [polypeptide binding]; other site 272563000299 GTP/Mg2+ binding site [chemical binding]; other site 272563000300 Switch I region; other site 272563000301 G2 box; other site 272563000302 G3 box; other site 272563000303 Switch II region; other site 272563000304 G4 box; other site 272563000305 G5 box; other site 272563000306 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 272563000307 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 272563000308 Antibiotic Binding Site [chemical binding]; other site 272563000309 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 272563000310 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 272563000311 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272563000312 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272563000313 putative homodimer interface [polypeptide binding]; other site 272563000314 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 272563000315 heterodimer interface [polypeptide binding]; other site 272563000316 homodimer interface [polypeptide binding]; other site 272563000317 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272563000318 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 272563000319 23S rRNA interface [nucleotide binding]; other site 272563000320 L7/L12 interface [polypeptide binding]; other site 272563000321 putative thiostrepton binding site; other site 272563000322 L25 interface [polypeptide binding]; other site 272563000323 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 272563000324 mRNA/rRNA interface [nucleotide binding]; other site 272563000325 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 272563000326 23S rRNA interface [nucleotide binding]; other site 272563000327 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272563000328 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 272563000329 core dimer interface [polypeptide binding]; other site 272563000330 peripheral dimer interface [polypeptide binding]; other site 272563000331 L10 interface [polypeptide binding]; other site 272563000332 L11 interface [polypeptide binding]; other site 272563000333 putative EF-Tu interaction site [polypeptide binding]; other site 272563000334 putative EF-G interaction site [polypeptide binding]; other site 272563000335 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272563000336 classical (c) SDRs; Region: SDR_c; cd05233 272563000337 NAD(P) binding site [chemical binding]; other site 272563000338 active site 272563000339 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 272563000340 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 272563000341 RPB12 interaction site [polypeptide binding]; other site 272563000342 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 272563000343 RPB1 interaction site [polypeptide binding]; other site 272563000344 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 272563000345 RPB10 interaction site [polypeptide binding]; other site 272563000346 RPB11 interaction site [polypeptide binding]; other site 272563000347 RPB3 interaction site [polypeptide binding]; other site 272563000348 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 272563000349 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 272563000350 beta and beta' interface [polypeptide binding]; other site 272563000351 beta' and sigma factor interface [polypeptide binding]; other site 272563000352 Zn-binding [ion binding]; other site 272563000353 active site region [active] 272563000354 catalytic site [active] 272563000355 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272563000356 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 272563000357 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272563000358 G-loop; other site 272563000359 DNA binding site [nucleotide binding] 272563000360 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 272563000361 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 272563000362 S17 interaction site [polypeptide binding]; other site 272563000363 S8 interaction site; other site 272563000364 16S rRNA interaction site [nucleotide binding]; other site 272563000365 streptomycin interaction site [chemical binding]; other site 272563000366 23S rRNA interaction site [nucleotide binding]; other site 272563000367 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272563000368 30S ribosomal protein S7; Validated; Region: PRK05302 272563000369 elongation factor G; Reviewed; Region: PRK00007 272563000370 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 272563000371 G1 box; other site 272563000372 putative GEF interaction site [polypeptide binding]; other site 272563000373 GTP/Mg2+ binding site [chemical binding]; other site 272563000374 Switch I region; other site 272563000375 G2 box; other site 272563000376 G3 box; other site 272563000377 Switch II region; other site 272563000378 G4 box; other site 272563000379 G5 box; other site 272563000380 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 272563000381 Elongation Factor G, domain II; Region: EFG_II; pfam14492 272563000382 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 272563000383 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 272563000384 elongation factor Tu; Reviewed; Region: PRK00049 272563000385 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272563000386 G1 box; other site 272563000387 GEF interaction site [polypeptide binding]; other site 272563000388 GTP/Mg2+ binding site [chemical binding]; other site 272563000389 Switch I region; other site 272563000390 G2 box; other site 272563000391 G3 box; other site 272563000392 Switch II region; other site 272563000393 G4 box; other site 272563000394 G5 box; other site 272563000395 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 272563000396 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 272563000397 Antibiotic Binding Site [chemical binding]; other site 272563000398 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 272563000399 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 272563000400 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 272563000401 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 272563000402 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272563000403 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272563000404 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272563000405 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 272563000406 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 272563000407 putative translocon binding site; other site 272563000408 protein-rRNA interface [nucleotide binding]; other site 272563000409 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 272563000410 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 272563000411 G-X-X-G motif; other site 272563000412 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272563000413 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 272563000414 23S rRNA interface [nucleotide binding]; other site 272563000415 5S rRNA interface [nucleotide binding]; other site 272563000416 putative antibiotic binding site [chemical binding]; other site 272563000417 L25 interface [polypeptide binding]; other site 272563000418 L27 interface [polypeptide binding]; other site 272563000419 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 272563000420 23S rRNA interface [nucleotide binding]; other site 272563000421 putative translocon interaction site; other site 272563000422 signal recognition particle (SRP54) interaction site; other site 272563000423 L23 interface [polypeptide binding]; other site 272563000424 trigger factor interaction site; other site 272563000425 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 272563000426 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 272563000427 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 272563000428 RNA binding site [nucleotide binding]; other site 272563000429 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 272563000430 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272563000431 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272563000432 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272563000433 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 272563000434 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 272563000435 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 272563000436 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272563000437 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272563000438 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 272563000439 5S rRNA interface [nucleotide binding]; other site 272563000440 L27 interface [polypeptide binding]; other site 272563000441 23S rRNA interface [nucleotide binding]; other site 272563000442 L5 interface [polypeptide binding]; other site 272563000443 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 272563000444 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272563000445 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272563000446 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 272563000447 23S rRNA binding site [nucleotide binding]; other site 272563000448 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 272563000449 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272563000450 SecY translocase; Region: SecY; pfam00344 272563000451 adenylate kinase; Reviewed; Region: adk; PRK00279 272563000452 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 272563000453 AMP-binding site [chemical binding]; other site 272563000454 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272563000455 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 272563000456 active site 272563000457 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 272563000458 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 272563000459 rRNA binding site [nucleotide binding]; other site 272563000460 predicted 30S ribosome binding site; other site 272563000461 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 272563000462 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 272563000463 30S ribosomal protein S11; Validated; Region: PRK05309 272563000464 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272563000465 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272563000466 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 272563000467 RNA binding surface [nucleotide binding]; other site 272563000468 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 272563000469 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272563000470 alphaNTD - beta interaction site [polypeptide binding]; other site 272563000471 alphaNTD homodimer interface [polypeptide binding]; other site 272563000472 alphaNTD - beta' interaction site [polypeptide binding]; other site 272563000473 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 272563000474 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 272563000475 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 272563000476 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272563000477 Walker A/P-loop; other site 272563000478 ATP binding site [chemical binding]; other site 272563000479 Q-loop/lid; other site 272563000480 ABC transporter signature motif; other site 272563000481 Walker B; other site 272563000482 D-loop; other site 272563000483 H-loop/switch region; other site 272563000484 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 272563000485 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272563000486 Walker A/P-loop; other site 272563000487 ATP binding site [chemical binding]; other site 272563000488 Q-loop/lid; other site 272563000489 ABC transporter signature motif; other site 272563000490 Walker B; other site 272563000491 D-loop; other site 272563000492 H-loop/switch region; other site 272563000493 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 272563000494 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272563000495 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 272563000496 dimerization interface 3.5A [polypeptide binding]; other site 272563000497 active site 272563000498 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 272563000499 23S rRNA interface [nucleotide binding]; other site 272563000500 L3 interface [polypeptide binding]; other site 272563000501 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 272563000502 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272563000503 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 272563000504 active site 272563000505 metal binding site [ion binding]; metal-binding site 272563000506 aspartate aminotransferase; Provisional; Region: PRK05764 272563000507 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 272563000508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563000509 homodimer interface [polypeptide binding]; other site 272563000510 catalytic residue [active] 272563000511 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 272563000512 ATP cone domain; Region: ATP-cone; pfam03477 272563000513 Class III ribonucleotide reductase; Region: RNR_III; cd01675 272563000514 effector binding site; other site 272563000515 active site 272563000516 Zn binding site [ion binding]; other site 272563000517 glycine loop; other site 272563000518 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 272563000519 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 272563000520 FeS/SAM binding site; other site 272563000521 Uncharacterized conserved protein [Function unknown]; Region: COG1624 272563000522 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 272563000523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 272563000524 YbbR-like protein; Region: YbbR; pfam07949 272563000525 phosphate butyryltransferase; Validated; Region: PRK05805 272563000526 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563000527 nucleotide binding site [chemical binding]; other site 272563000528 Acetokinase family; Region: Acetate_kinase; cl17229 272563000529 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563000530 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563000531 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 272563000532 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 272563000533 dimer interface [polypeptide binding]; other site 272563000534 PYR/PP interface [polypeptide binding]; other site 272563000535 TPP binding site [chemical binding]; other site 272563000536 substrate binding site [chemical binding]; other site 272563000537 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272563000538 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 272563000539 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 272563000540 TPP-binding site [chemical binding]; other site 272563000541 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 272563000542 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 272563000543 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 272563000544 active site 272563000545 substrate binding site [chemical binding]; other site 272563000546 metal binding site [ion binding]; metal-binding site 272563000547 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 272563000548 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 272563000549 glutaminase active site [active] 272563000550 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 272563000551 dimer interface [polypeptide binding]; other site 272563000552 active site 272563000553 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 272563000554 dimer interface [polypeptide binding]; other site 272563000555 active site 272563000556 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; cl00125 272563000557 active site residue [active] 272563000558 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 272563000559 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; cl00125 272563000560 active site residue [active] 272563000561 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; cl00125 272563000562 active site residue [active] 272563000563 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 272563000564 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 272563000565 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 272563000566 hinge; other site 272563000567 active site 272563000568 Stage II sporulation protein; Region: SpoIID; pfam08486 272563000569 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 272563000570 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 272563000571 Peptidase family M23; Region: Peptidase_M23; pfam01551 272563000572 Stage III sporulation protein D; Region: SpoIIID; pfam12116 272563000573 rod shape-determining protein Mbl; Provisional; Region: PRK13928 272563000574 MreB and similar proteins; Region: MreB_like; cd10225 272563000575 nucleotide binding site [chemical binding]; other site 272563000576 Mg binding site [ion binding]; other site 272563000577 putative protofilament interaction site [polypeptide binding]; other site 272563000578 RodZ interaction site [polypeptide binding]; other site 272563000579 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 272563000580 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 272563000581 S-adenosylmethionine synthetase; Validated; Region: PRK05250 272563000582 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 272563000583 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 272563000584 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 272563000585 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 272563000586 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 272563000587 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 272563000588 Helix-hairpin-helix containing domain; Region: HHH_4; pfam14490 272563000589 AAA domain; Region: AAA_30; pfam13604 272563000590 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 272563000591 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 272563000592 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563000593 active site 272563000594 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563000595 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563000596 PRD domain; Region: PRD; pfam00874 272563000597 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 272563000598 active site 272563000599 P-loop; other site 272563000600 phosphorylation site [posttranslational modification] 272563000601 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563000602 active site 272563000603 phosphorylation site [posttranslational modification] 272563000604 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 272563000605 methionine cluster; other site 272563000606 active site 272563000607 phosphorylation site [posttranslational modification] 272563000608 metal binding site [ion binding]; metal-binding site 272563000609 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 272563000610 active site 272563000611 P-loop; other site 272563000612 phosphorylation site [posttranslational modification] 272563000613 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563000614 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl19416 272563000615 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 272563000616 active site 272563000617 dimer interface [polypeptide binding]; other site 272563000618 catalytic nucleophile [active] 272563000619 dipeptidase PepV; Reviewed; Region: PRK07318 272563000620 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 272563000621 active site 272563000622 metal binding site [ion binding]; metal-binding site 272563000623 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 272563000624 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 272563000625 30S subunit binding site; other site 272563000626 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272563000627 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 272563000628 ATP binding site [chemical binding]; other site 272563000629 putative Mg++ binding site [ion binding]; other site 272563000630 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 272563000631 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 272563000632 SEC-C motif; Region: SEC-C; pfam02810 272563000633 peptide chain release factor 2; Provisional; Region: PRK05589 272563000634 PCRF domain; Region: PCRF; pfam03462 272563000635 RF-1 domain; Region: RF-1; pfam00472 272563000636 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 272563000637 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 272563000638 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 272563000639 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 272563000640 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 272563000641 RNA binding site [nucleotide binding]; other site 272563000642 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 272563000643 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 272563000644 active site 272563000645 Predicted membrane protein [Function unknown]; Region: COG3601 272563000646 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563000647 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563000648 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563000649 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563000650 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 272563000651 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 272563000652 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 272563000653 Glycoprotease family; Region: Peptidase_M22; pfam00814 272563000654 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272563000655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563000656 Coenzyme A binding pocket [chemical binding]; other site 272563000657 UGMP family protein; Validated; Region: PRK09604 272563000658 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272563000659 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 272563000660 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 272563000661 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272563000662 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 272563000663 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 272563000664 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 272563000665 CAAX protease self-immunity; Region: Abi; pfam02517 272563000666 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS appears to have a frameshift mutation at codon 209 272563000667 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 272563000668 active site 272563000669 metal binding site [ion binding]; metal-binding site 272563000670 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563000671 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 272563000672 active site 272563000673 phosphorylation site [posttranslational modification] 272563000674 intermolecular recognition site; other site 272563000675 dimerization interface [polypeptide binding]; other site 272563000676 LytTr DNA-binding domain; Region: LytTR; smart00850 272563000677 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563000678 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 272563000679 Walker A/P-loop; other site 272563000680 ATP binding site [chemical binding]; other site 272563000681 Q-loop/lid; other site 272563000682 ABC transporter signature motif; other site 272563000683 Walker B; other site 272563000684 D-loop; other site 272563000685 H-loop/switch region; other site 272563000686 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 272563000687 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 272563000688 FeS/SAM binding site; other site 272563000689 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 272563000690 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 272563000691 amino acid transporter; Region: 2A0306; TIGR00909 272563000692 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 272563000693 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563000694 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272563000695 metal binding site [ion binding]; metal-binding site 272563000696 dimer interface [polypeptide binding]; other site 272563000697 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272563000698 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 272563000699 Walker A motif; other site 272563000700 ATP binding site [chemical binding]; other site 272563000701 Walker B motif; other site 272563000702 arginine finger; other site 272563000703 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272563000704 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 272563000705 ligand binding site [chemical binding]; other site 272563000706 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563000707 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 272563000708 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272563000709 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563000710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563000711 ABC transporter; Region: ABC_tran_2; pfam12848 272563000712 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563000713 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 272563000714 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 272563000715 CoA binding domain; Region: CoA_binding; pfam02629 272563000716 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 272563000717 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 272563000718 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 272563000719 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563000720 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563000721 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 272563000722 putative active site [active] 272563000723 putative metal binding site [ion binding]; other site 272563000724 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563000725 ACS interaction site; other site 272563000726 CODH interaction site; other site 272563000727 metal cluster binding site [ion binding]; other site 272563000728 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563000729 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 272563000730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563000731 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563000732 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 272563000733 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 272563000734 S-adenosylmethionine binding site [chemical binding]; other site 272563000735 AAA domain; Region: AAA_17; cl19128 272563000736 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272563000737 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 272563000738 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 272563000739 NAD(P) binding site [chemical binding]; other site 272563000740 Evidence 7 : Gene remnant 272563000741 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 272563000742 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 272563000743 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563000744 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272563000745 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563000746 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 272563000747 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272563000748 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 272563000749 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 272563000750 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 272563000751 FAD binding pocket [chemical binding]; other site 272563000752 FAD binding motif [chemical binding]; other site 272563000753 phosphate binding motif [ion binding]; other site 272563000754 beta-alpha-beta structure motif; other site 272563000755 NAD binding pocket [chemical binding]; other site 272563000756 Iron coordination center [ion binding]; other site 272563000757 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 272563000758 heterodimer interface [polypeptide binding]; other site 272563000759 active site 272563000760 FMN binding site [chemical binding]; other site 272563000761 homodimer interface [polypeptide binding]; other site 272563000762 substrate binding site [chemical binding]; other site 272563000763 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563000764 active site 272563000765 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 272563000766 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 272563000767 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 272563000768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563000769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563000770 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 272563000771 putative dimerization interface [polypeptide binding]; other site 272563000772 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 272563000773 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 272563000774 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 272563000775 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272563000776 minor groove reading motif; other site 272563000777 helix-hairpin-helix signature motif; other site 272563000778 substrate binding pocket [chemical binding]; other site 272563000779 active site 272563000780 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 272563000781 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 272563000782 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 272563000783 putative active site [active] 272563000784 catalytic site [active] 272563000785 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 272563000786 putative active site [active] 272563000787 catalytic site [active] 272563000788 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 272563000789 oligomerisation interface [polypeptide binding]; other site 272563000790 mobile loop; other site 272563000791 roof hairpin; other site 272563000792 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 272563000793 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 272563000794 ring oligomerisation interface [polypeptide binding]; other site 272563000795 ATP/Mg binding site [chemical binding]; other site 272563000796 stacking interactions; other site 272563000797 hinge regions; other site 272563000798 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 272563000799 AIR carboxylase; Region: AIRC; smart01001 272563000800 Evidence 7 : Gene remnant ; This CDS appears to have a frameshift mutation at residue 240. The frameshift occurs within (A)10 homopolymeric tract. 272563000801 GMP synthase; Reviewed; Region: guaA; PRK00074 272563000802 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 272563000803 AMP/PPi binding site [chemical binding]; other site 272563000804 candidate oxyanion hole; other site 272563000805 catalytic triad [active] 272563000806 potential glutamine specificity residues [chemical binding]; other site 272563000807 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 272563000808 ATP Binding subdomain [chemical binding]; other site 272563000809 Ligand Binding sites [chemical binding]; other site 272563000810 Dimerization subdomain; other site 272563000811 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272563000812 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272563000813 active site 272563000814 metal binding site [ion binding]; metal-binding site 272563000815 Evidence 7 : Gene remnant; PubMedId : 19781061 272563000816 Chromate transporter; Region: Chromate_transp; pfam02417 272563000817 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272563000818 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563000819 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272563000820 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 272563000821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563000822 Walker A/P-loop; other site 272563000823 ATP binding site [chemical binding]; other site 272563000824 Q-loop/lid; other site 272563000825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563000826 ABC transporter signature motif; other site 272563000827 Walker B; other site 272563000828 D-loop; other site 272563000829 H-loop/switch region; other site 272563000830 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563000831 Walker A/P-loop; other site 272563000832 ATP binding site [chemical binding]; other site 272563000833 Q-loop/lid; other site 272563000834 ABC transporter signature motif; other site 272563000835 Walker B; other site 272563000836 D-loop; other site 272563000837 H-loop/switch region; other site 272563000838 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272563000839 nucleotidyl binding site; other site 272563000840 metal binding site [ion binding]; metal-binding site 272563000841 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 272563000842 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563000843 PRD domain; Region: PRD; pfam00874 272563000844 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 272563000845 active site 272563000846 P-loop; other site 272563000847 phosphorylation site [posttranslational modification] 272563000848 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563000849 active site 272563000850 phosphorylation site [posttranslational modification] 272563000851 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 272563000852 active site 272563000853 phosphorylation site [posttranslational modification] 272563000854 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 272563000855 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 272563000856 active site 272563000857 P-loop; other site 272563000858 phosphorylation site [posttranslational modification] 272563000859 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 272563000860 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272563000861 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 272563000862 motif II; other site 272563000863 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 272563000864 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 272563000865 active site 272563000866 metal-binding site 272563000867 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 272563000868 TPR motif; other site 272563000869 TPR repeat; Region: TPR_11; pfam13414 272563000870 binding surface 272563000871 Sulfatase; Region: Sulfatase; cl19157 272563000872 Coat F domain; Region: Coat_F; pfam07875 272563000873 Transposase IS200 like; Region: Y1_Tnp; pfam01797 272563000874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563000875 Probable transposase; Region: OrfB_IS605; pfam01385 272563000876 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563000877 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 272563000878 putative FMN binding site [chemical binding]; other site 272563000879 AIR carboxylase; Region: AIRC; pfam00731 272563000880 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 272563000881 ATP binding site [chemical binding]; other site 272563000882 active site 272563000883 substrate binding site [chemical binding]; other site 272563000884 amidophosphoribosyltransferase; Region: purF; TIGR01134 272563000885 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 272563000886 active site 272563000887 tetramer interface [polypeptide binding]; other site 272563000888 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563000889 active site 272563000890 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 272563000891 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 272563000892 dimerization interface [polypeptide binding]; other site 272563000893 putative ATP binding site [chemical binding]; other site 272563000894 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 272563000895 active site 272563000896 substrate binding site [chemical binding]; other site 272563000897 cosubstrate binding site; other site 272563000898 catalytic site [active] 272563000899 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 272563000900 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 272563000901 purine monophosphate binding site [chemical binding]; other site 272563000902 dimer interface [polypeptide binding]; other site 272563000903 putative catalytic residues [active] 272563000904 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 272563000905 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 272563000906 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 272563000907 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 272563000908 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 272563000909 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 272563000910 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 272563000911 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 272563000912 dimerization interface [polypeptide binding]; other site 272563000913 ATP binding site [chemical binding]; other site 272563000914 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 272563000915 dimerization interface [polypeptide binding]; other site 272563000916 ATP binding site [chemical binding]; other site 272563000917 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 272563000918 conserved cys residue [active] 272563000919 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272563000920 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 272563000921 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272563000922 catalytic residue [active] 272563000923 Protein of unknown function (DUF327); Region: DUF327; pfam03885 272563000924 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 272563000925 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 272563000926 FlgN protein; Region: FlgN; pfam05130 272563000927 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 272563000928 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272563000929 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272563000930 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 272563000931 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272563000932 FliW protein; Region: FliW; pfam02623 272563000933 Global regulator protein family; Region: CsrA; pfam02599 272563000934 Flagellar protein FliS; Region: FliS; cl00654 272563000935 Flagellar protein FliS; Region: FliS; cl00654 272563000936 flagellar capping protein; Validated; Region: fliD; PRK07737 272563000937 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 272563000938 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 272563000939 Flagellar protein FliT; Region: FliT; pfam05400 272563000940 flagellin; Reviewed; Region: PRK08869 272563000941 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272563000942 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272563000943 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272563000944 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 272563000945 active site 272563000946 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 272563000947 binding surface 272563000948 TPR motif; other site 272563000949 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563000950 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 272563000951 active site 272563000952 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 272563000953 S-adenosylmethionine binding site [chemical binding]; other site 272563000954 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; cl19502 272563000955 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 272563000956 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 272563000957 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 272563000958 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272563000959 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272563000960 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 272563000961 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 272563000962 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272563000963 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 272563000964 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 272563000965 FliG N-terminal domain; Region: FliG_N; pfam14842 272563000966 FliG middle domain; Region: FliG_M; pfam14841 272563000967 FliG C-terminal domain; Region: FliG_C; pfam01706 272563000968 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 272563000969 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 272563000970 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272563000971 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 272563000972 Walker A motif/ATP binding site; other site 272563000973 Walker B motif; other site 272563000974 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 272563000975 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 272563000976 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 272563000977 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 272563000978 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 272563000979 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272563000980 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272563000981 Flagellar protein (FlbD); Region: FlbD; pfam06289 272563000982 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272563000983 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 272563000984 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 272563000985 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272563000986 ligand binding site [chemical binding]; other site 272563000987 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 272563000988 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 272563000989 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 272563000990 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 272563000991 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 272563000992 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 272563000993 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 272563000994 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 272563000995 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 272563000996 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 272563000997 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 272563000998 P-loop; other site 272563000999 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 272563001000 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563001001 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272563001002 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 272563001003 DNA binding residues [nucleotide binding] 272563001004 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 272563001005 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272563001006 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 272563001007 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 272563001008 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 272563001009 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 272563001010 Flagellar motor switch protein FliM; Region: FliM; pfam02154 272563001011 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 272563001012 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272563001013 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 272563001014 binding surface 272563001015 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272563001016 TPR motif; other site 272563001017 heat shock protein 90; Provisional; Region: PRK05218 272563001018 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 272563001019 ATP binding site [chemical binding]; other site 272563001020 Mg2+ binding site [ion binding]; other site 272563001021 G-X-G motif; other site 272563001022 Hsp90 protein; Region: HSP90; pfam00183 272563001023 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 272563001024 putative active site [active] 272563001025 metal binding site [ion binding]; metal-binding site 272563001026 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272563001027 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 272563001028 FeS/SAM binding site; other site 272563001029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563001030 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563001031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563001032 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272563001033 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 272563001034 Predicted transcriptional regulators [Transcription]; Region: COG1733 272563001035 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272563001036 type III secretion system ATPase; Provisional; Region: PRK06315 272563001037 putative hydrolase; Validated; Region: PRK09248 272563001038 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 272563001039 active site 272563001040 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 272563001041 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 272563001042 Walker A motif; other site 272563001043 ATP binding site [chemical binding]; other site 272563001044 Walker B motif; other site 272563001045 arginine finger; other site 272563001046 Transcriptional antiterminator [Transcription]; Region: COG3933 272563001047 PRD domain; Region: PRD; pfam00874 272563001048 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; cl00025 272563001049 active pocket/dimerization site; other site 272563001050 active site 272563001051 phosphorylation site [posttranslational modification] 272563001052 PRD domain; Region: PRD; pfam00874 272563001053 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 272563001054 active pocket/dimerization site; other site 272563001055 active site 272563001056 phosphorylation site [posttranslational modification] 272563001057 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 272563001058 active site 272563001059 phosphorylation site [posttranslational modification] 272563001060 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; cl00025 272563001061 active pocket/dimerization site; other site 272563001062 active site 272563001063 phosphorylation site [posttranslational modification] 272563001064 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 272563001065 active site 272563001066 phosphorylation site [posttranslational modification] 272563001067 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 272563001068 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 272563001069 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 272563001070 dipeptidase PepV; Reviewed; Region: PRK07318 272563001071 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 272563001072 active site 272563001073 metal binding site [ion binding]; metal-binding site 272563001074 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563001075 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 272563001076 non-specific DNA binding site [nucleotide binding]; other site 272563001077 salt bridge; other site 272563001078 sequence-specific DNA binding site [nucleotide binding]; other site 272563001079 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 272563001080 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563001081 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563001082 Walker A/P-loop; other site 272563001083 ATP binding site [chemical binding]; other site 272563001084 Q-loop/lid; other site 272563001085 ABC transporter signature motif; other site 272563001086 Walker B; other site 272563001087 D-loop; other site 272563001088 H-loop/switch region; other site 272563001089 Acyltransferase family; Region: Acyl_transf_3; cl19154 272563001090 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 272563001091 Domain of unknown function (DUF362); Region: DUF362; cl19822 272563001092 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 272563001093 biotin synthase; Region: bioB; TIGR00433 272563001094 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 272563001095 FeS/SAM binding site; other site 272563001096 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 272563001097 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272563001098 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272563001099 DNA binding site [nucleotide binding] 272563001100 domain linker motif; other site 272563001101 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 272563001102 dimerization interface [polypeptide binding]; other site 272563001103 ligand binding site [chemical binding]; other site 272563001104 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 272563001105 substrate binding site [chemical binding]; other site 272563001106 dimer interface [polypeptide binding]; other site 272563001107 ATP binding site [chemical binding]; other site 272563001108 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 272563001109 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 272563001110 ligand binding site [chemical binding]; other site 272563001111 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272563001112 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272563001113 Walker A/P-loop; other site 272563001114 ATP binding site [chemical binding]; other site 272563001115 Q-loop/lid; other site 272563001116 ABC transporter signature motif; other site 272563001117 Walker B; other site 272563001118 D-loop; other site 272563001119 H-loop/switch region; other site 272563001120 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 272563001121 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272563001122 TM-ABC transporter signature motif; other site 272563001123 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 272563001124 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272563001125 metal binding site [ion binding]; metal-binding site 272563001126 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 272563001127 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 272563001128 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 272563001129 putative metal binding site [ion binding]; other site 272563001130 Tetratricopeptide repeat; Region: TPR_16; pfam13432 272563001131 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563001132 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 272563001133 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 272563001134 dimerization interface [polypeptide binding]; other site 272563001135 putative DNA binding site [nucleotide binding]; other site 272563001136 putative Zn2+ binding site [ion binding]; other site 272563001137 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 272563001138 metal-binding site [ion binding] 272563001139 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272563001140 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 272563001141 metal-binding site [ion binding] 272563001142 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563001143 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563001144 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 272563001145 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563001146 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563001147 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563001148 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 272563001149 Walker A/P-loop; other site 272563001150 ATP binding site [chemical binding]; other site 272563001151 Q-loop/lid; other site 272563001152 ABC transporter signature motif; other site 272563001153 Walker B; other site 272563001154 D-loop; other site 272563001155 H-loop/switch region; other site 272563001156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563001157 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 272563001158 dimer interface [polypeptide binding]; other site 272563001159 phosphorylation site [posttranslational modification] 272563001160 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 272563001161 ATP binding site [chemical binding]; other site 272563001162 Mg2+ binding site [ion binding]; other site 272563001163 G-X-G motif; other site 272563001164 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563001165 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 272563001166 active site 272563001167 phosphorylation site [posttranslational modification] 272563001168 intermolecular recognition site; other site 272563001169 dimerization interface [polypeptide binding]; other site 272563001170 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 272563001171 DNA binding site [nucleotide binding] 272563001172 Helix-turn-helix domain; Region: HTH_17; pfam12728 272563001173 MoxR-like ATPases [General function prediction only]; Region: COG0714 272563001174 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; cl18944 272563001175 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 272563001176 metal ion-dependent adhesion site (MIDAS); other site 272563001177 cobalt transport protein CbiM; Validated; Region: PRK08319 272563001178 cobalt transport protein CbiN; Provisional; Region: PRK02898 272563001179 Cobalt transport protein; Region: CbiQ; cl00463 272563001180 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272563001181 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272563001182 Walker A/P-loop; other site 272563001183 ATP binding site [chemical binding]; other site 272563001184 Q-loop/lid; other site 272563001185 ABC transporter signature motif; other site 272563001186 Walker B; other site 272563001187 D-loop; other site 272563001188 H-loop/switch region; other site 272563001189 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 272563001190 Part of AAA domain; Region: AAA_19; pfam13245 272563001191 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 272563001192 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 272563001193 active site 272563001194 metal binding site [ion binding]; metal-binding site 272563001195 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 272563001196 active site 272563001197 nucleophile elbow; other site 272563001198 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 272563001199 active site 272563001200 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563001201 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563001202 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563001203 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563001204 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563001205 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563001206 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 272563001207 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_assoc2; cd04597 272563001208 DRTGG domain; Region: DRTGG; pfam07085 272563001209 CBS domain; Region: CBS; pfam00571 272563001210 DHHA2 domain; Region: DHHA2; pfam02833 272563001211 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 272563001212 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 272563001213 putative catalytic cysteine [active] 272563001214 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 272563001215 putative active site [active] 272563001216 metal binding site [ion binding]; metal-binding site 272563001217 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563001218 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563001219 Walker A/P-loop; other site 272563001220 ATP binding site [chemical binding]; other site 272563001221 Q-loop/lid; other site 272563001222 ABC transporter signature motif; other site 272563001223 Walker B; other site 272563001224 D-loop; other site 272563001225 H-loop/switch region; other site 272563001226 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563001227 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563001228 FtsX-like permease family; Region: FtsX; pfam02687 272563001229 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272563001230 FtsX-like permease family; Region: FtsX; pfam02687 272563001231 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 272563001232 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 272563001233 ATP binding site [chemical binding]; other site 272563001234 Mg2+ binding site [ion binding]; other site 272563001235 G-X-G motif; other site 272563001236 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563001237 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 272563001238 active site 272563001239 phosphorylation site [posttranslational modification] 272563001240 intermolecular recognition site; other site 272563001241 dimerization interface [polypeptide binding]; other site 272563001242 LytTr DNA-binding domain; Region: LytTR; pfam04397 272563001243 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 272563001244 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 272563001245 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272563001246 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272563001247 synthetase active site [active] 272563001248 NTP binding site [chemical binding]; other site 272563001249 metal binding site [ion binding]; metal-binding site 272563001250 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 272563001251 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 272563001252 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 272563001253 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS appears to have a frameshift mutation around codon 248. 272563001254 Uncharacterized conserved protein [Function unknown]; Region: COG5663 272563001255 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272563001256 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 272563001257 non-specific DNA binding site [nucleotide binding]; other site 272563001258 salt bridge; other site 272563001259 sequence-specific DNA binding site [nucleotide binding]; other site 272563001260 Cupin domain; Region: Cupin_2; pfam07883 272563001261 D-aminoacyl-tRNA deacylase; Region: tRNA_deacylase; cl00716 272563001262 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS is disrupted by the insertion of a conjugative transposon 272563001263 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 272563001264 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 272563001265 active site 272563001266 DNA binding site [nucleotide binding] 272563001267 Int/Topo IB signature motif; other site 272563001268 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 272563001269 Helix-turn-helix domain; Region: HTH_16; pfam12645 272563001270 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563001271 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 272563001272 DNA binding residues [nucleotide binding] 272563001273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563001274 DNA-binding site [nucleotide binding]; DNA binding site 272563001275 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563001276 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 272563001277 ATP binding site [chemical binding]; other site 272563001278 Mg2+ binding site [ion binding]; other site 272563001279 G-X-G motif; other site 272563001280 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563001281 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 272563001282 active site 272563001283 phosphorylation site [posttranslational modification] 272563001284 intermolecular recognition site; other site 272563001285 dimerization interface [polypeptide binding]; other site 272563001286 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 272563001287 DNA binding site [nucleotide binding] 272563001288 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563001289 FtsX-like permease family; Region: FtsX; pfam02687 272563001290 FtsX-like permease family; Region: FtsX; pfam02687 272563001291 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563001292 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563001293 Walker A/P-loop; other site 272563001294 ATP binding site [chemical binding]; other site 272563001295 Q-loop/lid; other site 272563001296 ABC transporter signature motif; other site 272563001297 Walker B; other site 272563001298 D-loop; other site 272563001299 H-loop/switch region; other site 272563001300 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563001301 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563001302 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 272563001303 Walker A/P-loop; other site 272563001304 ATP binding site [chemical binding]; other site 272563001305 Q-loop/lid; other site 272563001306 ABC transporter signature motif; other site 272563001307 Walker B; other site 272563001308 D-loop; other site 272563001309 H-loop/switch region; other site 272563001310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563001311 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 272563001312 dimer interface [polypeptide binding]; other site 272563001313 phosphorylation site [posttranslational modification] 272563001314 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 272563001315 ATP binding site [chemical binding]; other site 272563001316 Mg2+ binding site [ion binding]; other site 272563001317 G-X-G motif; other site 272563001318 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563001319 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 272563001320 active site 272563001321 phosphorylation site [posttranslational modification] 272563001322 intermolecular recognition site; other site 272563001323 dimerization interface [polypeptide binding]; other site 272563001324 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 272563001325 DNA binding site [nucleotide binding] 272563001326 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563001327 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 272563001328 non-specific DNA binding site [nucleotide binding]; other site 272563001329 salt bridge; other site 272563001330 sequence-specific DNA binding site [nucleotide binding]; other site 272563001331 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 272563001332 Lysozyme-like; Region: Lysozyme_like; pfam13702 272563001333 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563001334 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 272563001335 AAA-like domain; Region: AAA_10; pfam12846 272563001336 TcpE family; Region: TcpE; pfam12648 272563001337 Antirestriction protein (ArdA); Region: ArdA; pfam07275 272563001338 Antirestriction protein (ArdA); Region: ArdA; cl01953 272563001339 Protein of unknown function (DUF3789); Region: DUF3789; pfam12664 272563001340 Replication initiation factor; Region: Rep_trans; pfam02486 272563001341 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 272563001342 Walker A motif; other site 272563001343 ATP binding site [chemical binding]; other site 272563001344 Walker B motif; other site 272563001345 arginine finger; other site 272563001346 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272563001347 Cna protein B-type domain; Region: Cna_B; pfam05738 272563001348 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272563001349 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 272563001350 active site turn [active] 272563001351 phosphorylation site [posttranslational modification] 272563001352 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563001353 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563001354 HPr interaction site; other site 272563001355 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563001356 active site 272563001357 phosphorylation site [posttranslational modification] 272563001358 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 272563001359 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563001360 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563001361 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563001362 PRD domain; Region: PRD; pfam00874 272563001363 PRD domain; Region: PRD; pfam00874 272563001364 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 272563001365 active site 272563001366 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 272563001367 Ligand Binding Site [chemical binding]; other site 272563001368 Molecular Tunnel; other site 272563001369 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 272563001370 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272563001371 FeS/SAM binding site; other site 272563001372 TIGR04002 family protein; Region: TIGR04002 272563001373 D-lactate dehydrogenase; Validated; Region: PRK08605 272563001374 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 272563001375 homodimer interface [polypeptide binding]; other site 272563001376 ligand binding site [chemical binding]; other site 272563001377 NAD binding site [chemical binding]; other site 272563001378 catalytic site [active] 272563001379 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 272563001380 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272563001381 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 272563001382 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 272563001383 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 272563001384 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 272563001385 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272563001386 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272563001387 active site 272563001388 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272563001389 Ligand binding site [chemical binding]; other site 272563001390 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272563001391 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272563001392 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272563001393 PAS domain; Region: PAS; smart00091 272563001394 PAS domain; Region: PAS_9; pfam13426 272563001395 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272563001396 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 272563001397 Walker A motif; other site 272563001398 ATP binding site [chemical binding]; other site 272563001399 Walker B motif; other site 272563001400 arginine finger; other site 272563001401 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 272563001402 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 272563001403 intersubunit interface [polypeptide binding]; other site 272563001404 active site 272563001405 zinc binding site [ion binding]; other site 272563001406 Na+ binding site [ion binding]; other site 272563001407 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 272563001408 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272563001409 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 272563001410 RNA binding surface [nucleotide binding]; other site 272563001411 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 272563001412 active site 272563001413 uracil binding [chemical binding]; other site 272563001414 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272563001415 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 272563001416 S-adenosylmethionine binding site [chemical binding]; other site 272563001417 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 272563001418 hypothetical protein; Validated; Region: PRK08116 272563001419 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 272563001420 Walker A motif; other site 272563001421 ATP binding site [chemical binding]; other site 272563001422 Walker B motif; other site 272563001423 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272563001424 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 272563001425 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 272563001426 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 272563001427 Walker A motif; other site 272563001428 ATP binding site [chemical binding]; other site 272563001429 Walker B motif; other site 272563001430 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 272563001431 generic binding surface II; other site 272563001432 generic binding surface I; other site 272563001433 Maff2 family; Region: Maff2; pfam12750 272563001434 PrgI family protein; Region: PrgI; pfam12666 272563001435 AAA-like domain; Region: AAA_10; pfam12846 272563001436 Domain of unknown function DUF87; Region: DUF87; cl19135 272563001437 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl19151 272563001438 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 272563001439 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 272563001440 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 272563001441 active site 272563001442 putative interdomain interaction site [polypeptide binding]; other site 272563001443 putative metal-binding site [ion binding]; other site 272563001444 putative nucleotide binding site [chemical binding]; other site 272563001445 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 272563001446 domain I; other site 272563001447 DNA binding groove [nucleotide binding] 272563001448 phosphate binding site [ion binding]; other site 272563001449 domain II; other site 272563001450 domain III; other site 272563001451 nucleotide binding site [chemical binding]; other site 272563001452 catalytic site [active] 272563001453 domain IV; other site 272563001454 KilA-N domain; Region: KilA-N; pfam04383 272563001455 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 272563001456 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 272563001457 Methyltransferase domain; Region: Methyltransf_26; pfam13659 272563001458 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 272563001459 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272563001460 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 272563001461 helicase superfamily c-terminal domain; Region: HELICc; smart00490 272563001462 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 272563001463 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl19391 272563001464 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 272563001465 non-specific DNA binding site [nucleotide binding]; other site 272563001466 salt bridge; other site 272563001467 sequence-specific DNA binding site [nucleotide binding]; other site 272563001468 Helix-turn-helix domain; Region: HTH_18; pfam12833 272563001469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563001470 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 272563001471 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 272563001472 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272563001473 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 272563001474 Walker A/P-loop; other site 272563001475 ATP binding site [chemical binding]; other site 272563001476 Q-loop/lid; other site 272563001477 ABC transporter signature motif; other site 272563001478 Walker B; other site 272563001479 D-loop; other site 272563001480 H-loop/switch region; other site 272563001481 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 272563001482 Walker A/P-loop; other site 272563001483 ATP binding site [chemical binding]; other site 272563001484 Q-loop/lid; other site 272563001485 ABC transporter signature motif; other site 272563001486 Walker B; other site 272563001487 D-loop; other site 272563001488 H-loop/switch region; other site 272563001489 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563001490 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563001491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563001492 Walker A/P-loop; other site 272563001493 ATP binding site [chemical binding]; other site 272563001494 Q-loop/lid; other site 272563001495 ABC transporter signature motif; other site 272563001496 Walker B; other site 272563001497 D-loop; other site 272563001498 H-loop/switch region; other site 272563001499 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563001500 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563001501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563001502 Walker A/P-loop; other site 272563001503 ATP binding site [chemical binding]; other site 272563001504 Q-loop/lid; other site 272563001505 ABC transporter signature motif; other site 272563001506 Walker B; other site 272563001507 D-loop; other site 272563001508 H-loop/switch region; other site 272563001509 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563001510 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563001511 elongation factor Tu; Reviewed; Region: PRK12736 272563001512 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563001513 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 272563001514 DNA binding residues [nucleotide binding] 272563001515 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272563001516 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272563001517 catalytic residues [active] 272563001518 catalytic nucleophile [active] 272563001519 Recombinase; Region: Recombinase; pfam07508 272563001520 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272563001521 Evidence 7 : Gene remnant 272563001522 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 272563001523 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563001524 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563001525 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563001526 PAS domain; Region: PAS_9; pfam13426 272563001527 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 272563001528 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 272563001529 Walker A motif; other site 272563001530 ATP binding site [chemical binding]; other site 272563001531 Walker B motif; other site 272563001532 arginine finger; other site 272563001533 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272563001534 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 272563001535 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; cl19130 272563001536 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 272563001537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563001538 catalytic residue [active] 272563001539 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 272563001540 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 272563001541 B12 binding site [chemical binding]; other site 272563001542 MutL protein; Region: MutL; pfam13941 272563001543 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 272563001544 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 272563001545 dimer interface [polypeptide binding]; other site 272563001546 active site 272563001547 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272563001548 substrate binding site [chemical binding]; other site 272563001549 catalytic residue [active] 272563001550 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 272563001551 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 272563001552 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272563001553 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 272563001554 active site 272563001555 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 272563001556 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_14; cd04672 272563001557 nudix motif; other site 272563001558 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 272563001559 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 272563001560 motif II; other site 272563001561 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 272563001562 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563001563 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 272563001564 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 272563001565 Part of AAA domain; Region: AAA_19; pfam13245 272563001566 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 272563001567 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 272563001568 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272563001569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563001570 Walker A/P-loop; other site 272563001571 ATP binding site [chemical binding]; other site 272563001572 Q-loop/lid; other site 272563001573 ABC transporter signature motif; other site 272563001574 Walker B; other site 272563001575 D-loop; other site 272563001576 H-loop/switch region; other site 272563001577 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 272563001578 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563001579 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563001580 Walker A/P-loop; other site 272563001581 ATP binding site [chemical binding]; other site 272563001582 Q-loop/lid; other site 272563001583 ABC transporter signature motif; other site 272563001584 Walker B; other site 272563001585 D-loop; other site 272563001586 H-loop/switch region; other site 272563001587 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272563001588 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563001589 FtsX-like permease family; Region: FtsX; pfam02687 272563001590 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563001591 FtsX-like permease family; Region: FtsX; pfam02687 272563001592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563001593 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 272563001594 dimer interface [polypeptide binding]; other site 272563001595 phosphorylation site [posttranslational modification] 272563001596 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 272563001597 ATP binding site [chemical binding]; other site 272563001598 Mg2+ binding site [ion binding]; other site 272563001599 G-X-G motif; other site 272563001600 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563001601 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 272563001602 active site 272563001603 dimerization interface [polypeptide binding]; other site 272563001604 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 272563001605 DNA binding site [nucleotide binding] 272563001606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563001607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563001608 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563001609 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563001610 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563001611 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 272563001612 putative active site [active] 272563001613 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563001614 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563001615 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 272563001616 putative active site [active] 272563001617 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 272563001618 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272563001619 active site 272563001620 motif I; other site 272563001621 motif II; other site 272563001622 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563001623 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 272563001624 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 272563001625 Ca binding site [ion binding]; other site 272563001626 active site 272563001627 catalytic site [active] 272563001628 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 272563001629 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 272563001630 active site turn [active] 272563001631 phosphorylation site [posttranslational modification] 272563001632 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563001633 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563001634 HPr interaction site; other site 272563001635 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563001636 active site 272563001637 phosphorylation site [posttranslational modification] 272563001638 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 272563001639 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 272563001640 Penicillinase repressor; Region: Penicillinase_R; pfam03965 272563001641 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563001642 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563001643 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272563001644 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 272563001645 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563001646 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 272563001647 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 272563001648 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 272563001649 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 272563001650 Walker A/P-loop; other site 272563001651 ATP binding site [chemical binding]; other site 272563001652 Q-loop/lid; other site 272563001653 ABC transporter signature motif; other site 272563001654 Walker B; other site 272563001655 D-loop; other site 272563001656 H-loop/switch region; other site 272563001657 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 272563001658 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 272563001659 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563001660 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 272563001661 active site 272563001662 phosphorylation site [posttranslational modification] 272563001663 intermolecular recognition site; other site 272563001664 dimerization interface [polypeptide binding]; other site 272563001665 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 272563001666 DNA binding site [nucleotide binding] 272563001667 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563001668 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 272563001669 dimerization interface [polypeptide binding]; other site 272563001670 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 272563001671 dimer interface [polypeptide binding]; other site 272563001672 phosphorylation site [posttranslational modification] 272563001673 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 272563001674 ATP binding site [chemical binding]; other site 272563001675 Mg2+ binding site [ion binding]; other site 272563001676 G-X-G motif; other site 272563001677 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563001678 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563001679 FtsX-like permease family; Region: FtsX; pfam02687 272563001680 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563001681 FtsX-like permease family; Region: FtsX; pfam02687 272563001682 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563001683 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563001684 Walker A/P-loop; other site 272563001685 ATP binding site [chemical binding]; other site 272563001686 Q-loop/lid; other site 272563001687 ABC transporter signature motif; other site 272563001688 Walker B; other site 272563001689 D-loop; other site 272563001690 H-loop/switch region; other site 272563001691 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563001692 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 272563001693 dimerization interface [polypeptide binding]; other site 272563001694 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 272563001695 dimer interface [polypeptide binding]; other site 272563001696 phosphorylation site [posttranslational modification] 272563001697 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 272563001698 ATP binding site [chemical binding]; other site 272563001699 Mg2+ binding site [ion binding]; other site 272563001700 G-X-G motif; other site 272563001701 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563001702 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 272563001703 active site 272563001704 phosphorylation site [posttranslational modification] 272563001705 intermolecular recognition site; other site 272563001706 dimerization interface [polypeptide binding]; other site 272563001707 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 272563001708 DNA binding site [nucleotide binding] 272563001709 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 272563001710 putative active site [active] 272563001711 catalytic triad [active] 272563001712 dimer interface [polypeptide binding]; other site 272563001713 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 272563001714 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 272563001715 ATP binding site [chemical binding]; other site 272563001716 active site 272563001717 substrate binding site [chemical binding]; other site 272563001718 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272563001719 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 272563001720 putative NAD(P) binding site [chemical binding]; other site 272563001721 catalytic Zn binding site [ion binding]; other site 272563001722 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 272563001723 active pocket/dimerization site; other site 272563001724 active site 272563001725 phosphorylation site [posttranslational modification] 272563001726 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 272563001727 active site 272563001728 phosphorylation site [posttranslational modification] 272563001729 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 272563001730 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 272563001731 Evidence 7 : Gene remnant; PubMedId : 19781061 ; this CDS has been disrupted by the insertion of the conjugative transposon Tn5397. 272563001732 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272563001733 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272563001734 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 272563001735 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 272563001736 Walker A motif; other site 272563001737 ATP binding site [chemical binding]; other site 272563001738 Walker B motif; other site 272563001739 arginine finger; other site 272563001740 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 272563001741 non-specific DNA binding site [nucleotide binding]; other site 272563001742 salt bridge; other site 272563001743 sequence-specific DNA binding site [nucleotide binding]; other site 272563001744 Replication initiation factor; Region: Rep_trans; pfam02486 272563001745 Antirestriction protein (ArdA); Region: ArdA; pfam07275 272563001746 TcpE family; Region: TcpE; pfam12648 272563001747 AAA-like domain; Region: AAA_10; pfam12846 272563001748 Haemolysin-III related; Region: HlyIII; cl03831 272563001749 ZW10 interactor; Region: Zwint; pfam15556 272563001750 Evidence 7 : Gene remnant; PubMedId : 12568329,12568327, 17650959, 11157942, 11073898, 8863741 272563001751 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 272563001752 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272563001753 putative active site [active] 272563001754 putative NTP binding site [chemical binding]; other site 272563001755 putative nucleic acid binding site [nucleotide binding]; other site 272563001756 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 272563001757 active site 272563001758 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 272563001759 Evidence 7 : Gene remnant; PubMedId : 12568329,12568327, 17650959, 11157942, 11073898, 8863741 272563001760 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 272563001761 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 272563001762 G1 box; other site 272563001763 putative GEF interaction site [polypeptide binding]; other site 272563001764 GTP/Mg2+ binding site [chemical binding]; other site 272563001765 Switch I region; other site 272563001766 G2 box; other site 272563001767 G3 box; other site 272563001768 Switch II region; other site 272563001769 G4 box; other site 272563001770 G5 box; other site 272563001771 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 272563001772 Elongation Factor G, domain II; Region: EFG_II; pfam14492 272563001773 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 272563001774 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 272563001775 Cysteine-rich KTR; Region: Cys_rich_KTR; pfam14205 272563001776 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 272563001777 non-specific DNA binding site [nucleotide binding]; other site 272563001778 salt bridge; other site 272563001779 sequence-specific DNA binding site [nucleotide binding]; other site 272563001780 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563001781 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 272563001782 DNA binding residues [nucleotide binding] 272563001783 Helix-turn-helix domain; Region: HTH_16; pfam12645 272563001784 Evidence 7 : Gene remnant; PubMedId : 12568329,12568327, 17650959, 11157942, 11073898, 8863741 272563001785 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272563001786 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 272563001787 putative catalytic residues [active] 272563001788 catalytic nucleophile [active] 272563001789 Recombinase; Region: Recombinase; pfam07508 272563001790 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272563001791 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 272563001792 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563001793 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563001794 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563001795 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272563001796 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 272563001797 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 272563001798 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 272563001799 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 272563001800 Walker A motif; other site 272563001801 ATP binding site [chemical binding]; other site 272563001802 Walker B motif; other site 272563001803 arginine finger; other site 272563001804 Transcriptional antiterminator [Transcription]; Region: COG3933 272563001805 PRD domain; Region: PRD; pfam00874 272563001806 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 272563001807 active pocket/dimerization site; other site 272563001808 active site 272563001809 phosphorylation site [posttranslational modification] 272563001810 PRD domain; Region: PRD; pfam00874 272563001811 Uncharacterized conserved protein [Function unknown]; Region: COG2966 272563001812 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 272563001813 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 272563001814 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 272563001815 GAF domain; Region: GAF_3; pfam13492 272563001816 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 272563001817 dimer interface [polypeptide binding]; other site 272563001818 phosphorylation site [posttranslational modification] 272563001819 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 272563001820 ATP binding site [chemical binding]; other site 272563001821 Mg2+ binding site [ion binding]; other site 272563001822 G-X-G motif; other site 272563001823 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563001824 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 272563001825 active site 272563001826 phosphorylation site [posttranslational modification] 272563001827 intermolecular recognition site; other site 272563001828 dimerization interface [polypeptide binding]; other site 272563001829 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 272563001830 DNA binding site [nucleotide binding] 272563001831 GAF domain; Region: GAF_2; pfam13185 272563001832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563001833 metal binding site [ion binding]; metal-binding site 272563001834 active site 272563001835 I-site; other site 272563001836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563001837 metal binding site [ion binding]; metal-binding site 272563001838 active site 272563001839 I-site; other site 272563001840 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 272563001841 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 272563001842 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 272563001843 peptidase T-like protein; Region: PepT-like; TIGR01883 272563001844 metal binding site [ion binding]; metal-binding site 272563001845 putative dimer interface [polypeptide binding]; other site 272563001846 Evidence 7 : Gene remnant; PubMedId : 19781061,9829935, 17307853 ; this CDS appears to have a frameshift mutation following codon 183. 272563001847 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272563001848 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563001849 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 272563001850 metal binding site [ion binding]; metal-binding site 272563001851 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 272563001852 Predicted transcriptional regulator [Transcription]; Region: COG2378 272563001853 HTH domain; Region: HTH_11; pfam08279 272563001854 WYL domain; Region: WYL; pfam13280 272563001855 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563001856 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 272563001857 active site 272563001858 phosphorylation site [posttranslational modification] 272563001859 intermolecular recognition site; other site 272563001860 dimerization interface [polypeptide binding]; other site 272563001861 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 272563001862 Chemotaxis phosphatase CheX; Region: CheX; cl15816 272563001863 CheC-like family; Region: CheC; pfam04509 272563001864 CheD chemotactic sensory transduction; Region: CheD; cl00810 272563001865 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 272563001866 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 272563001867 active site 272563001868 phosphorylation site [posttranslational modification] 272563001869 intermolecular recognition site; other site 272563001870 dimerization interface [polypeptide binding]; other site 272563001871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563001872 metal binding site [ion binding]; metal-binding site 272563001873 active site 272563001874 I-site; other site 272563001875 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 272563001876 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 272563001877 dimerization interface [polypeptide binding]; other site 272563001878 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272563001879 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 272563001880 dimer interface [polypeptide binding]; other site 272563001881 putative CheW interface [polypeptide binding]; other site 272563001882 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272563001883 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 272563001884 putative binding surface; other site 272563001885 active site 272563001886 P2 response regulator binding domain; Region: P2; pfam07194 272563001887 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272563001888 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 272563001889 ATP binding site [chemical binding]; other site 272563001890 Mg2+ binding site [ion binding]; other site 272563001891 G-X-G motif; other site 272563001892 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272563001893 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272563001894 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272563001895 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 272563001896 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 272563001897 CheB methylesterase; Region: CheB_methylest; pfam01339 272563001898 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 272563001899 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 272563001900 ornithine cyclodeaminase; Validated; Region: PRK08618 272563001901 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 272563001902 Protein of unknown function (DUF975); Region: DUF975; cl10504 272563001903 Penicillinase repressor; Region: Penicillinase_R; pfam03965 272563001904 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 272563001905 Formin Homology 2 Domain; Region: FH2; cl19758 272563001906 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272563001907 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272563001908 Protease prsW family; Region: PrsW-protease; pfam13367 272563001909 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 272563001910 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 272563001911 S-adenosylmethionine binding site [chemical binding]; other site 272563001912 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 272563001913 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272563001914 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 272563001915 Catalytic site [active] 272563001916 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 272563001917 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272563001918 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 272563001919 Catalytic site [active] 272563001920 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 272563001921 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272563001922 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272563001923 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 272563001924 active site 272563001925 glutaminase A; Region: Gln_ase; TIGR03814 272563001926 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 272563001927 dimerization interface [polypeptide binding]; other site 272563001928 putative DNA binding site [nucleotide binding]; other site 272563001929 putative Zn2+ binding site [ion binding]; other site 272563001930 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 272563001931 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 272563001932 AP (apurinic/apyrimidinic) site pocket; other site 272563001933 DNA interaction; other site 272563001934 Metal-binding active site; metal-binding site 272563001935 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 272563001936 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 272563001937 active site 272563001938 catalytic tetrad [active] 272563001939 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 272563001940 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 272563001941 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 272563001942 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 272563001943 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 272563001944 AAA domain; Region: AAA_32; pfam13654 272563001945 ATP-dependent protease Lon; Provisional; Region: PRK13765 272563001946 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272563001947 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272563001948 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272563001949 minor groove reading motif; other site 272563001950 helix-hairpin-helix signature motif; other site 272563001951 substrate binding pocket [chemical binding]; other site 272563001952 active site 272563001953 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 272563001954 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 272563001955 EDD domain protein, DegV family; Region: DegV; TIGR00762 272563001956 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 272563001957 ligand binding site [chemical binding]; other site 272563001958 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 272563001959 ligand binding site [chemical binding]; other site 272563001960 YtxC-like family; Region: YtxC; cl08500 272563001961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 272563001962 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272563001963 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 272563001964 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 272563001965 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 272563001966 active site 272563001967 dimer interface [polypeptide binding]; other site 272563001968 motif 1; other site 272563001969 motif 2; other site 272563001970 motif 3; other site 272563001971 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 272563001972 anticodon binding site; other site 272563001973 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 272563001974 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 272563001975 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272563001976 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 272563001977 ATP binding site [chemical binding]; other site 272563001978 Mg2+ binding site [ion binding]; other site 272563001979 G-X-G motif; other site 272563001980 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 272563001981 H+ Antiporter protein; Region: 2A0121; TIGR00900 272563001982 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 272563001983 putative substrate translocation pore; other site 272563001984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563001985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563001986 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 272563001987 tetrameric interface [polypeptide binding]; other site 272563001988 activator binding site; other site 272563001989 NADP binding site [chemical binding]; other site 272563001990 substrate binding site [chemical binding]; other site 272563001991 catalytic residues [active] 272563001992 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563001993 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563001994 phosphoenolpyruvate synthase; Validated; Region: PRK06241 272563001995 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272563001996 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272563001997 Evidence 7 : Gene remnant 272563001998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563001999 metal binding site [ion binding]; metal-binding site 272563002000 active site 272563002001 I-site; other site 272563002002 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563002003 metal binding site [ion binding]; metal-binding site 272563002004 active site 272563002005 I-site; other site 272563002006 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272563002007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563002008 DNA-binding site [nucleotide binding]; DNA binding site 272563002009 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563002010 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563002011 DNA-binding site [nucleotide binding]; DNA binding site 272563002012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563002013 Walker A/P-loop; other site 272563002014 ATP binding site [chemical binding]; other site 272563002015 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 272563002016 G1 box; other site 272563002017 GTP/Mg2+ binding site [chemical binding]; other site 272563002018 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 272563002019 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272563002020 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563002021 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272563002022 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 272563002023 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 272563002024 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 272563002025 Active Sites [active] 272563002026 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 272563002027 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 272563002028 ParB-like nuclease domain; Region: ParBc; pfam02195 272563002029 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 272563002030 CotJB protein; Region: CotJB; pfam12652 272563002031 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 272563002032 dimanganese center [ion binding]; other site 272563002033 Evidence 7 : Gene remnant; PubMedId : 8516313,8451183 272563002034 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 272563002035 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 272563002036 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 272563002037 DNA binding site [nucleotide binding] 272563002038 active site 272563002039 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 272563002040 Evidence 7 : Gene remnant 272563002041 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 272563002042 Evidence 7 : Gene remnant 272563002043 Evidence 7 : Gene remnant; PubMedId : 10539975,12384697 272563002044 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 272563002045 GrpB protein; Region: GrpB; pfam04229 272563002046 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272563002047 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 272563002048 GHKL domain; Region: HATPase_c_5; pfam14501 272563002049 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563002050 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 272563002051 active site 272563002052 phosphorylation site [posttranslational modification] 272563002053 intermolecular recognition site; other site 272563002054 dimerization interface [polypeptide binding]; other site 272563002055 LytTr DNA-binding domain; Region: LytTR; smart00850 272563002056 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563002057 FtsX-like permease family; Region: FtsX; pfam02687 272563002058 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563002059 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563002060 Walker A/P-loop; other site 272563002061 ATP binding site [chemical binding]; other site 272563002062 Q-loop/lid; other site 272563002063 ABC transporter signature motif; other site 272563002064 Walker B; other site 272563002065 D-loop; other site 272563002066 H-loop/switch region; other site 272563002067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563002068 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563002069 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563002070 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 272563002071 DNA binding residues [nucleotide binding] 272563002072 drug binding residues [chemical binding]; other site 272563002073 dimer interface [polypeptide binding]; other site 272563002074 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563002075 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563002076 LytTr DNA-binding domain; Region: LytTR; smart00850 272563002077 YvrJ protein family; Region: YvrJ; pfam12841 272563002078 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 272563002079 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 272563002080 Mor transcription activator family; Region: Mor; cl02360 272563002081 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 272563002082 non-specific DNA interactions [nucleotide binding]; other site 272563002083 DNA binding site [nucleotide binding] 272563002084 sequence specific DNA binding site [nucleotide binding]; other site 272563002085 putative cAMP binding site [chemical binding]; other site 272563002086 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 272563002087 replicative DNA helicase; Region: DnaB; TIGR00665 272563002088 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272563002089 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 272563002090 Walker A motif; other site 272563002091 ATP binding site [chemical binding]; other site 272563002092 Walker B motif; other site 272563002093 Mor transcription activator family; Region: Mor; cl02360 272563002094 Ferredoxin [Energy production and conversion]; Region: COG1146 272563002095 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563002096 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272563002097 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 272563002098 ligand binding site [chemical binding]; other site 272563002099 flexible hinge region; other site 272563002100 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 272563002101 putative switch regulator; other site 272563002102 non-specific DNA interactions [nucleotide binding]; other site 272563002103 DNA binding site [nucleotide binding] 272563002104 sequence specific DNA binding site [nucleotide binding]; other site 272563002105 putative cAMP binding site [chemical binding]; other site 272563002106 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563002107 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563002108 Predicted transcriptional regulators [Transcription]; Region: COG1695 272563002109 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 272563002110 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 272563002111 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272563002112 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563002113 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 272563002114 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272563002115 FeS/SAM binding site; other site 272563002116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563002117 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272563002118 Coenzyme A binding pocket [chemical binding]; other site 272563002119 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 272563002120 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 272563002121 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 272563002122 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 272563002123 non-specific DNA binding site [nucleotide binding]; other site 272563002124 salt bridge; other site 272563002125 sequence-specific DNA binding site [nucleotide binding]; other site 272563002126 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563002127 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 272563002128 active site 272563002129 phosphorylation site [posttranslational modification] 272563002130 intermolecular recognition site; other site 272563002131 dimerization interface [polypeptide binding]; other site 272563002132 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 272563002133 DNA binding site [nucleotide binding] 272563002134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563002135 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 272563002136 dimer interface [polypeptide binding]; other site 272563002137 phosphorylation site [posttranslational modification] 272563002138 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 272563002139 ATP binding site [chemical binding]; other site 272563002140 Mg2+ binding site [ion binding]; other site 272563002141 G-X-G motif; other site 272563002142 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563002143 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 272563002144 Walker A/P-loop; other site 272563002145 ATP binding site [chemical binding]; other site 272563002146 Q-loop/lid; other site 272563002147 ABC transporter signature motif; other site 272563002148 Walker B; other site 272563002149 D-loop; other site 272563002150 H-loop/switch region; other site 272563002151 Evidence 7 : Gene remnant 272563002152 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272563002153 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 272563002154 DNA-binding site [nucleotide binding]; DNA binding site 272563002155 FCD domain; Region: FCD; pfam07729 272563002156 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 272563002157 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 272563002158 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 272563002159 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 272563002160 Predicted transcriptional regulators [Transcription]; Region: COG1725 272563002161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563002162 DNA-binding site [nucleotide binding]; DNA binding site 272563002163 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563002164 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563002165 Walker A/P-loop; other site 272563002166 ATP binding site [chemical binding]; other site 272563002167 Q-loop/lid; other site 272563002168 ABC transporter signature motif; other site 272563002169 Walker B; other site 272563002170 D-loop; other site 272563002171 H-loop/switch region; other site 272563002172 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 272563002173 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272563002174 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; cl02915 272563002175 Cl- selectivity filter; other site 272563002176 Cl- binding residues [ion binding]; other site 272563002177 pore gating glutamate residue; other site 272563002178 dimer interface [polypeptide binding]; other site 272563002179 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 272563002180 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563002181 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563002182 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 272563002183 DNA binding residues [nucleotide binding] 272563002184 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 272563002185 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 272563002186 Peptidase C80 family; Region: Peptidase_C80; pfam11713 272563002187 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 272563002188 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272563002189 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272563002190 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272563002191 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272563002192 Holin family; Region: Phage_holin_4; cl01989 272563002193 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 272563002194 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 272563002195 Peptidase C80 family; Region: Peptidase_C80; pfam11713 272563002196 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 272563002197 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272563002198 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272563002199 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272563002200 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272563002201 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272563002202 Pathogenicity locus; Region: Cdd1; pfam11731 272563002203 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 272563002204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 272563002205 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563002206 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563002207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563002208 Walker A/P-loop; other site 272563002209 ATP binding site [chemical binding]; other site 272563002210 Q-loop/lid; other site 272563002211 ABC transporter signature motif; other site 272563002212 Walker B; other site 272563002213 D-loop; other site 272563002214 H-loop/switch region; other site 272563002215 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563002216 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 272563002217 active site 272563002218 phosphorylation site [posttranslational modification] 272563002219 intermolecular recognition site; other site 272563002220 dimerization interface [polypeptide binding]; other site 272563002221 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 272563002222 DNA binding site [nucleotide binding] 272563002223 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 272563002224 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 272563002225 dimer interface [polypeptide binding]; other site 272563002226 phosphorylation site [posttranslational modification] 272563002227 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 272563002228 ATP binding site [chemical binding]; other site 272563002229 Mg2+ binding site [ion binding]; other site 272563002230 G-X-G motif; other site 272563002231 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563002232 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_23; cd09011 272563002233 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 272563002234 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 272563002235 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 272563002236 S-adenosylmethionine binding site [chemical binding]; other site 272563002237 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563002238 Coenzyme A binding pocket [chemical binding]; other site 272563002239 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 272563002240 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563002241 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 272563002242 DNA binding residues [nucleotide binding] 272563002243 Evidence 7 : Gene remnant; PubMedId : 19781061 272563002244 SnoaL-like domain; Region: SnoaL_2; pfam12680 272563002245 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 272563002246 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 272563002247 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 272563002248 benzoate transport; Region: 2A0115; TIGR00895 272563002249 putative substrate translocation pore; other site 272563002250 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 272563002251 Na binding site [ion binding]; other site 272563002252 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272563002253 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272563002254 DNA binding site [nucleotide binding] 272563002255 domain linker motif; other site 272563002256 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_2; cd06278 272563002257 putative ligand binding site [chemical binding]; other site 272563002258 putative dimerization interface [polypeptide binding]; other site 272563002259 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272563002260 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 272563002261 Walker A motif; other site 272563002262 ATP binding site [chemical binding]; other site 272563002263 Walker B motif; other site 272563002264 arginine finger; other site 272563002265 Peptidase family M41; Region: Peptidase_M41; pfam01434 272563002266 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 272563002267 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272563002268 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272563002269 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 272563002270 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272563002271 23S rRNA binding site [nucleotide binding]; other site 272563002272 L21 binding site [polypeptide binding]; other site 272563002273 L13 binding site [polypeptide binding]; other site 272563002274 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; cl17220 272563002275 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272563002276 active site 272563002277 metal binding site [ion binding]; metal-binding site 272563002278 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272563002279 active site 272563002280 metal binding site [ion binding]; metal-binding site 272563002281 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272563002282 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272563002283 active site 272563002284 metal binding site [ion binding]; metal-binding site 272563002285 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272563002286 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272563002287 active site 272563002288 metal binding site [ion binding]; metal-binding site 272563002289 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272563002290 classical (c) SDRs; Region: SDR_c; cd05233 272563002291 NAD(P) binding site [chemical binding]; other site 272563002292 active site 272563002293 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272563002294 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 272563002295 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 272563002296 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563002297 DNA binding residues [nucleotide binding] 272563002298 drug binding residues [chemical binding]; other site 272563002299 dimer interface [polypeptide binding]; other site 272563002300 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563002301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563002302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563002303 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 272563002304 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 272563002305 active site 272563002306 Zn binding site [ion binding]; other site 272563002307 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 272563002308 Cation transport protein; Region: TrkH; cl17365 272563002309 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 272563002310 TrkA-N domain; Region: TrkA_N; pfam02254 272563002311 TrkA-C domain; Region: TrkA_C; pfam02080 272563002312 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 272563002313 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 272563002314 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 272563002315 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 272563002316 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272563002317 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 272563002318 dimer interface [polypeptide binding]; other site 272563002319 motif 1; other site 272563002320 active site 272563002321 motif 2; other site 272563002322 motif 3; other site 272563002323 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272563002324 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 272563002325 putative tRNA-binding site [nucleotide binding]; other site 272563002326 B3/4 domain; Region: B3_4; pfam03483 272563002327 tRNA synthetase B5 domain; Region: B5; smart00874 272563002328 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 272563002329 dimer interface [polypeptide binding]; other site 272563002330 motif 1; other site 272563002331 motif 3; other site 272563002332 motif 2; other site 272563002333 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 272563002334 Cell division protein ZapA; Region: ZapA; pfam05164 272563002335 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 272563002336 putative protease; Provisional; Region: PRK15452 272563002337 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272563002338 Collagenase; Region: DUF3656; pfam12392 272563002339 Peptidase family U32; Region: Peptidase_U32; pfam01136 272563002340 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272563002341 Zn2+ binding site [ion binding]; other site 272563002342 Mg2+ binding site [ion binding]; other site 272563002343 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 272563002344 putative active site [active] 272563002345 nucleotide binding site [chemical binding]; other site 272563002346 nudix motif; other site 272563002347 putative metal binding site [ion binding]; other site 272563002348 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 272563002349 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563002350 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272563002351 FMN binding site [chemical binding]; other site 272563002352 dimer interface [polypeptide binding]; other site 272563002353 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 272563002354 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 272563002355 substrate binding pocket [chemical binding]; other site 272563002356 membrane-bound complex binding site; other site 272563002357 hinge residues; other site 272563002358 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563002359 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 272563002360 substrate binding pocket [chemical binding]; other site 272563002361 membrane-bound complex binding site; other site 272563002362 hinge residues; other site 272563002363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563002364 metal binding site [ion binding]; metal-binding site 272563002365 active site 272563002366 I-site; other site 272563002367 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 272563002368 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 272563002369 metal binding site [ion binding]; metal-binding site 272563002370 dimer interface [polypeptide binding]; other site 272563002371 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 272563002372 MutS domain III; Region: MutS_III; pfam05192 272563002373 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 272563002374 Walker A/P-loop; other site 272563002375 ATP binding site [chemical binding]; other site 272563002376 Q-loop/lid; other site 272563002377 ABC transporter signature motif; other site 272563002378 Walker B; other site 272563002379 D-loop; other site 272563002380 H-loop/switch region; other site 272563002381 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 272563002382 Smr domain; Region: Smr; pfam01713 272563002383 Protein of unknown function (DUF523); Region: DUF523; pfam04463 272563002384 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 272563002385 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 272563002386 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272563002387 active site 272563002388 HIGH motif; other site 272563002389 KMSK motif region; other site 272563002390 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 272563002391 tRNA binding surface [nucleotide binding]; other site 272563002392 anticodon binding site; other site 272563002393 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 272563002394 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 272563002395 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 272563002396 FeS/SAM binding site; other site 272563002397 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 272563002398 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 272563002399 binding surface 272563002400 TPR motif; other site 272563002401 TPR repeat; Region: TPR_11; pfam13414 272563002402 Evidence 7 : Gene remnant; Product type pt : putative transporter 272563002403 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 272563002404 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563002405 ACS interaction site; other site 272563002406 CODH interaction site; other site 272563002407 metal cluster binding site [ion binding]; other site 272563002408 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 272563002409 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 272563002410 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 272563002411 P-loop; other site 272563002412 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 272563002413 Potassium binding sites [ion binding]; other site 272563002414 Cesium cation binding sites [ion binding]; other site 272563002415 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 272563002416 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 272563002417 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272563002418 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272563002419 homodimer interface [polypeptide binding]; other site 272563002420 NADP binding site [chemical binding]; other site 272563002421 substrate binding site [chemical binding]; other site 272563002422 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 272563002423 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 272563002424 FAD binding site [chemical binding]; other site 272563002425 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 272563002426 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563002427 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 272563002428 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 272563002429 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 272563002430 P-loop; other site 272563002431 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 272563002432 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 272563002433 Putative Fe-S cluster; Region: FeS; pfam04060 272563002434 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 272563002435 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 272563002436 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 272563002437 substrate binding pocket [chemical binding]; other site 272563002438 dimer interface [polypeptide binding]; other site 272563002439 inhibitor binding site; inhibition site 272563002440 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 272563002441 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563002442 ACS interaction site; other site 272563002443 CODH interaction site; other site 272563002444 metal cluster binding site [ion binding]; other site 272563002445 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 272563002446 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 272563002447 lipoyl attachment site [posttranslational modification]; other site 272563002448 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 272563002449 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 272563002450 catalytic loop [active] 272563002451 iron binding site [ion binding]; other site 272563002452 Domain of unknown function (DUF4445); Region: DUF4445; pfam14574 272563002453 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 272563002454 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 272563002455 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272563002456 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 272563002457 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 272563002458 FeS/SAM binding site; other site 272563002459 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 272563002460 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 272563002461 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 272563002462 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 272563002463 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 272563002464 active site 272563002465 dimer interface [polypeptide binding]; other site 272563002466 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 272563002467 Domains similar to the Pancreatic-derived factor; Region: PANDER_like; cl19122 272563002468 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272563002469 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563002470 catalytic residue [active] 272563002471 glycerol kinase; Provisional; Region: glpK; PRK00047 272563002472 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 272563002473 N- and C-terminal domain interface [polypeptide binding]; other site 272563002474 active site 272563002475 MgATP binding site [chemical binding]; other site 272563002476 catalytic site [active] 272563002477 metal binding site [ion binding]; metal-binding site 272563002478 glycerol binding site [chemical binding]; other site 272563002479 homotetramer interface [polypeptide binding]; other site 272563002480 homodimer interface [polypeptide binding]; other site 272563002481 FBP binding site [chemical binding]; other site 272563002482 protein IIAGlc interface [polypeptide binding]; other site 272563002483 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 272563002484 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272563002485 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 272563002486 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 272563002487 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 272563002488 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 272563002489 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 272563002490 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272563002491 ligand binding site [chemical binding]; other site 272563002492 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272563002493 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272563002494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563002495 metal binding site [ion binding]; metal-binding site 272563002496 active site 272563002497 I-site; other site 272563002498 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 272563002499 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272563002500 Part of AAA domain; Region: AAA_19; pfam13245 272563002501 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 272563002502 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563002503 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 272563002504 substrate binding pocket [chemical binding]; other site 272563002505 membrane-bound complex binding site; other site 272563002506 hinge residues; other site 272563002507 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 272563002508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563002509 dimer interface [polypeptide binding]; other site 272563002510 conserved gate region; other site 272563002511 putative PBP binding loops; other site 272563002512 ABC-ATPase subunit interface; other site 272563002513 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272563002514 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272563002515 Walker A/P-loop; other site 272563002516 ATP binding site [chemical binding]; other site 272563002517 Q-loop/lid; other site 272563002518 ABC transporter signature motif; other site 272563002519 Walker B; other site 272563002520 D-loop; other site 272563002521 H-loop/switch region; other site 272563002522 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 272563002523 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563002524 catalytic residue [active] 272563002525 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 272563002526 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 272563002527 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 272563002528 Ligand Binding Site [chemical binding]; other site 272563002529 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 272563002530 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 272563002531 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272563002532 FMN binding site [chemical binding]; other site 272563002533 dimer interface [polypeptide binding]; other site 272563002534 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 272563002535 putative active site [active] 272563002536 PAS fold; Region: PAS_3; pfam08447 272563002537 heme pocket [chemical binding]; other site 272563002538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563002539 metal binding site [ion binding]; metal-binding site 272563002540 active site 272563002541 I-site; other site 272563002542 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 272563002543 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 272563002544 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 272563002545 FeS/SAM binding site; other site 272563002546 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 272563002547 Pyruvate formate lyase 1; Region: PFL1; cd01678 272563002548 coenzyme A binding site [chemical binding]; other site 272563002549 active site 272563002550 catalytic residues [active] 272563002551 glycine loop; other site 272563002552 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 272563002553 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 272563002554 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 272563002555 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272563002556 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 272563002557 ATP binding site [chemical binding]; other site 272563002558 Mg++ binding site [ion binding]; other site 272563002559 motif III; other site 272563002560 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 272563002561 nucleotide binding region [chemical binding]; other site 272563002562 ATP-binding site [chemical binding]; other site 272563002563 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 272563002564 RNA binding site [nucleotide binding]; other site 272563002565 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563002566 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563002567 PRD domain; Region: PRD; pfam00874 272563002568 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 272563002569 active site 272563002570 P-loop; other site 272563002571 phosphorylation site [posttranslational modification] 272563002572 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563002573 active site 272563002574 phosphorylation site [posttranslational modification] 272563002575 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 272563002576 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 272563002577 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 272563002578 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 272563002579 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 272563002580 putative NAD(P) binding site [chemical binding]; other site 272563002581 active site 272563002582 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 272563002583 putative [4Fe-4S] binding site [ion binding]; other site 272563002584 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 272563002585 putative molybdopterin cofactor binding site [chemical binding]; other site 272563002586 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 272563002587 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 272563002588 anti sigma factor interaction site; other site 272563002589 regulatory phosphorylation site [posttranslational modification]; other site 272563002590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563002591 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 272563002592 ATP binding site [chemical binding]; other site 272563002593 Mg2+ binding site [ion binding]; other site 272563002594 G-X-G motif; other site 272563002595 sporulation sigma factor SigF; Validated; Region: PRK05572 272563002596 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563002597 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272563002598 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 272563002599 DNA binding residues [nucleotide binding] 272563002600 SpoVA protein; Region: SpoVA; cl04298 272563002601 stage V sporulation protein AD; Validated; Region: PRK08304 272563002602 stage V sporulation protein AD; Region: spore_V_AD; TIGR02845 272563002603 SpoVA protein; Region: SpoVA; pfam03862 272563002604 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272563002605 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272563002606 DNA binding site [nucleotide binding] 272563002607 domain linker motif; other site 272563002608 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 272563002609 ligand binding site [chemical binding]; other site 272563002610 dimerization interface [polypeptide binding]; other site 272563002611 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 272563002612 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 272563002613 amidohydrolase; Region: amidohydrolases; TIGR01891 272563002614 metal binding site [ion binding]; metal-binding site 272563002615 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 272563002616 Transglycosylase; Region: Transgly; pfam00912 272563002617 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272563002618 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272563002619 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 272563002620 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 272563002621 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 272563002622 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272563002623 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 272563002624 active site 272563002625 metal binding site [ion binding]; metal-binding site 272563002626 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272563002627 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563002628 ABC transporter; Region: ABC_tran_2; pfam12848 272563002629 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563002630 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 272563002631 Cysteine-rich small domain; Region: zf-like; pfam04071 272563002632 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272563002633 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 272563002634 HflX GTPase family; Region: HflX; cd01878 272563002635 G1 box; other site 272563002636 GTP/Mg2+ binding site [chemical binding]; other site 272563002637 Switch I region; other site 272563002638 G2 box; other site 272563002639 G3 box; other site 272563002640 Switch II region; other site 272563002641 G4 box; other site 272563002642 G5 box; other site 272563002643 HEAT repeats; Region: HEAT_2; pfam13646 272563002644 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 272563002645 active site 272563002646 Ap6A binding site [chemical binding]; other site 272563002647 nudix motif; other site 272563002648 metal binding site [ion binding]; metal-binding site 272563002649 Uncharacterized conserved protein [Function unknown]; Region: COG1739 272563002650 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 272563002651 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 272563002652 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272563002653 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272563002654 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 272563002655 homodimer interface [polypeptide binding]; other site 272563002656 NAD binding pocket [chemical binding]; other site 272563002657 ATP binding pocket [chemical binding]; other site 272563002658 Mg binding site [ion binding]; other site 272563002659 active-site loop [active] 272563002660 hypothetical protein; Validated; Region: PRK00110 272563002661 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272563002662 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272563002663 DNA binding site [nucleotide binding] 272563002664 Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_hexuronate_repressor_like; cd06272 272563002665 putative dimerization interface [polypeptide binding]; other site 272563002666 putative ligand binding site [chemical binding]; other site 272563002667 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 272563002668 active site 272563002669 catalytic residues [active] 272563002670 metal binding site [ion binding]; metal-binding site 272563002671 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 272563002672 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272563002673 transmembrane helices; other site 272563002674 Citrate transporter; Region: CitMHS; pfam03600 272563002675 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 272563002676 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 272563002677 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 272563002678 substrate binding site [chemical binding]; other site 272563002679 oxyanion hole (OAH) forming residues; other site 272563002680 trimer interface [polypeptide binding]; other site 272563002681 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272563002682 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 272563002683 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 272563002684 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272563002685 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272563002686 active site 272563002687 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272563002688 Ligand binding site [chemical binding]; other site 272563002689 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272563002690 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272563002691 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272563002692 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 272563002693 PAS domain; Region: PAS_9; pfam13426 272563002694 putative active site [active] 272563002695 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 272563002696 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 272563002697 Walker A motif; other site 272563002698 ATP binding site [chemical binding]; other site 272563002699 Walker B motif; other site 272563002700 arginine finger; other site 272563002701 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272563002702 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563002703 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563002704 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563002705 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563002706 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563002707 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563002708 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563002709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563002710 metal binding site [ion binding]; metal-binding site 272563002711 active site 272563002712 I-site; other site 272563002713 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 272563002714 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 272563002715 Ligand Binding Site [chemical binding]; other site 272563002716 PTS system, Lactose/Cellobiose specific IIB subunit; Region: PTS_IIB; pfam02302 272563002717 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272563002718 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563002719 DNA-binding site [nucleotide binding]; DNA binding site 272563002720 FCD domain; Region: FCD; pfam07729 272563002721 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 272563002722 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563002723 putative substrate translocation pore; other site 272563002724 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272563002725 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 272563002726 active site turn [active] 272563002727 phosphorylation site [posttranslational modification] 272563002728 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563002729 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563002730 HPr interaction site; other site 272563002731 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563002732 active site 272563002733 phosphorylation site [posttranslational modification] 272563002734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563002735 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563002736 Probable transposase; Region: OrfB_IS605; pfam01385 272563002737 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563002738 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 272563002739 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563002740 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563002741 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563002742 PRD domain; Region: PRD; pfam00874 272563002743 PRD domain; Region: PRD; pfam00874 272563002744 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563002745 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 272563002746 active site 272563002747 phosphorylation site [posttranslational modification] 272563002748 intermolecular recognition site; other site 272563002749 dimerization interface [polypeptide binding]; other site 272563002750 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 272563002751 DNA binding site [nucleotide binding] 272563002752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563002753 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 272563002754 dimer interface [polypeptide binding]; other site 272563002755 phosphorylation site [posttranslational modification] 272563002756 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 272563002757 ATP binding site [chemical binding]; other site 272563002758 Mg2+ binding site [ion binding]; other site 272563002759 G-X-G motif; other site 272563002760 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563002761 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 272563002762 Walker A/P-loop; other site 272563002763 ATP binding site [chemical binding]; other site 272563002764 Q-loop/lid; other site 272563002765 ABC transporter signature motif; other site 272563002766 Walker B; other site 272563002767 D-loop; other site 272563002768 H-loop/switch region; other site 272563002769 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563002770 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563002771 Rubrerythrin [Energy production and conversion]; Region: COG1592 272563002772 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 272563002773 binuclear metal center [ion binding]; other site 272563002774 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 272563002775 iron binding site [ion binding]; other site 272563002776 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272563002777 metal binding site 2 [ion binding]; metal-binding site 272563002778 putative DNA binding helix; other site 272563002779 metal binding site 1 [ion binding]; metal-binding site 272563002780 dimer interface [polypeptide binding]; other site 272563002781 structural Zn2+ binding site [ion binding]; other site 272563002782 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 272563002783 non-heme iron binding site [ion binding]; other site 272563002784 Desulfoferrodoxin [Energy production and conversion]; Region: COG2033 272563002785 dimer interface [polypeptide binding]; other site 272563002786 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 272563002787 non-heme iron binding site [ion binding]; other site 272563002788 Rubredoxin [Energy production and conversion]; Region: COG1773 272563002789 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 272563002790 iron binding site [ion binding]; other site 272563002791 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 272563002792 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 272563002793 active site 272563002794 FMN binding site [chemical binding]; other site 272563002795 substrate binding site [chemical binding]; other site 272563002796 3Fe-4S cluster binding site [ion binding]; other site 272563002797 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 272563002798 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 272563002799 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 272563002800 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272563002801 ATP binding site [chemical binding]; other site 272563002802 Mg++ binding site [ion binding]; other site 272563002803 motif III; other site 272563002804 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 272563002805 nucleotide binding region [chemical binding]; other site 272563002806 ATP-binding site [chemical binding]; other site 272563002807 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 272563002808 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 272563002809 active site 272563002810 catalytic residues [active] 272563002811 metal binding site [ion binding]; metal-binding site 272563002812 aconitate hydratase; Validated; Region: PRK07229 272563002813 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 272563002814 substrate binding site [chemical binding]; other site 272563002815 ligand binding site [chemical binding]; other site 272563002816 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 272563002817 substrate binding site [chemical binding]; other site 272563002818 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 272563002819 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563002820 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272563002821 dimerization interface [polypeptide binding]; other site 272563002822 putative Zn2+ binding site [ion binding]; other site 272563002823 putative DNA binding site [nucleotide binding]; other site 272563002824 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 272563002825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563002826 Coenzyme A binding pocket [chemical binding]; other site 272563002827 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 272563002828 putative FMN binding site [chemical binding]; other site 272563002829 Trp repressor protein; Region: Trp_repressor; cl17266 272563002830 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 272563002831 DNA binding site [nucleotide binding] 272563002832 CAAX protease self-immunity; Region: Abi; pfam02517 272563002833 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 272563002834 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 272563002835 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 272563002836 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 272563002837 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272563002838 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 272563002839 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563002840 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563002841 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563002842 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 272563002843 GIY-YIG motif/motif A; other site 272563002844 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 272563002845 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 272563002846 amidohydrolase; Region: amidohydrolases; TIGR01891 272563002847 putative metal binding site [ion binding]; other site 272563002848 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 272563002849 TIGR03987 family protein; Region: TIGR03987 272563002850 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563002851 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; cl17220 272563002852 putative DNA binding site [nucleotide binding]; other site 272563002853 putative Zn2+ binding site [ion binding]; other site 272563002854 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272563002855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563002856 dimer interface [polypeptide binding]; other site 272563002857 conserved gate region; other site 272563002858 putative PBP binding loops; other site 272563002859 ABC-ATPase subunit interface; other site 272563002860 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 272563002861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563002862 dimer interface [polypeptide binding]; other site 272563002863 conserved gate region; other site 272563002864 putative PBP binding loops; other site 272563002865 ABC-ATPase subunit interface; other site 272563002866 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272563002867 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 272563002868 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272563002869 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272563002870 Walker A/P-loop; other site 272563002871 ATP binding site [chemical binding]; other site 272563002872 Q-loop/lid; other site 272563002873 ABC transporter signature motif; other site 272563002874 Walker B; other site 272563002875 D-loop; other site 272563002876 H-loop/switch region; other site 272563002877 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272563002878 Evidence 7 : Gene remnant; PubMedId : 17135193,11781802, 18504552, 18952792, 8384683 ; this CDS contains a stop codon at reasidue 46 272563002879 Evidence 7 : Gene remnant; PubMedId : 16339734,12618438, 8407777 ; This CDS appears to have a stop codon at residue 542 272563002880 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272563002881 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 272563002882 active site 272563002883 P-loop; other site 272563002884 phosphorylation site [posttranslational modification] 272563002885 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563002886 methionine cluster; other site 272563002887 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 272563002888 active site 272563002889 phosphorylation site [posttranslational modification] 272563002890 metal binding site [ion binding]; metal-binding site 272563002891 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272563002892 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 272563002893 NAD binding site [chemical binding]; other site 272563002894 sugar binding site [chemical binding]; other site 272563002895 divalent metal binding site [ion binding]; other site 272563002896 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563002897 dimer interface [polypeptide binding]; other site 272563002898 hypothetical protein; Provisional; Region: PRK04143 272563002899 ADP-ribose binding site [chemical binding]; other site 272563002900 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272563002901 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 272563002902 Helix-turn-helix domain; Region: HTH_17; pfam12728 272563002903 PBP superfamily domain; Region: PBP_like; pfam12727 272563002904 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 272563002905 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272563002906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563002907 dimer interface [polypeptide binding]; other site 272563002908 conserved gate region; other site 272563002909 putative PBP binding loops; other site 272563002910 ABC-ATPase subunit interface; other site 272563002911 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 272563002912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563002913 Walker A/P-loop; other site 272563002914 ATP binding site [chemical binding]; other site 272563002915 Q-loop/lid; other site 272563002916 ABC transporter signature motif; other site 272563002917 Walker B; other site 272563002918 D-loop; other site 272563002919 H-loop/switch region; other site 272563002920 maltose O-acetyltransferase; Provisional; Region: PRK10092 272563002921 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 272563002922 active site 272563002923 substrate binding site [chemical binding]; other site 272563002924 trimer interface [polypeptide binding]; other site 272563002925 CoA binding site [chemical binding]; other site 272563002926 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 272563002927 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 272563002928 zinc binding site [ion binding]; other site 272563002929 putative ligand binding site [chemical binding]; other site 272563002930 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 272563002931 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563002932 Walker A/P-loop; other site 272563002933 ATP binding site [chemical binding]; other site 272563002934 Q-loop/lid; other site 272563002935 ABC transporter signature motif; other site 272563002936 Walker B; other site 272563002937 D-loop; other site 272563002938 H-loop/switch region; other site 272563002939 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 272563002940 TM-ABC transporter signature motif; other site 272563002941 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 272563002942 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 272563002943 zinc binding site [ion binding]; other site 272563002944 putative ligand binding site [chemical binding]; other site 272563002945 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 272563002946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563002947 Walker A/P-loop; other site 272563002948 ATP binding site [chemical binding]; other site 272563002949 Q-loop/lid; other site 272563002950 ABC transporter signature motif; other site 272563002951 Walker B; other site 272563002952 D-loop; other site 272563002953 H-loop/switch region; other site 272563002954 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 272563002955 TM-ABC transporter signature motif; other site 272563002956 Uncharacterized conserved protein [Function unknown]; Region: COG0062 272563002957 putative carbohydrate kinase; Provisional; Region: PRK10565 272563002958 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 272563002959 putative substrate binding site [chemical binding]; other site 272563002960 putative ATP binding site [chemical binding]; other site 272563002961 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 272563002962 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 272563002963 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 272563002964 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 272563002965 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 272563002966 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272563002967 ligand binding site; other site 272563002968 oligomer interface; other site 272563002969 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 272563002970 dimer interface [polypeptide binding]; other site 272563002971 N-terminal domain interface [polypeptide binding]; other site 272563002972 sulfate 1 binding site; other site 272563002973 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 272563002974 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272563002975 ligand binding site; other site 272563002976 oligomer interface; other site 272563002977 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 272563002978 dimer interface [polypeptide binding]; other site 272563002979 N-terminal domain interface [polypeptide binding]; other site 272563002980 sulfate 1 binding site; other site 272563002981 glycogen synthase; Provisional; Region: glgA; PRK00654 272563002982 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 272563002983 ADP-binding pocket [chemical binding]; other site 272563002984 homodimer interface [polypeptide binding]; other site 272563002985 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 272563002986 homodimer interface [polypeptide binding]; other site 272563002987 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272563002988 active site pocket [active] 272563002989 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 272563002990 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 272563002991 active site 272563002992 homodimer interface [polypeptide binding]; other site 272563002993 catalytic site [active] 272563002994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563002995 DNA-binding site [nucleotide binding]; DNA binding site 272563002996 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 272563002997 FCD domain; Region: FCD; pfam07729 272563002998 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 272563002999 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; cl18945 272563003000 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563003001 catalytic residue [active] 272563003002 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 272563003003 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 272563003004 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 272563003005 S-adenosylmethionine binding site [chemical binding]; other site 272563003006 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 272563003007 putative active site [active] 272563003008 Mn binding site [ion binding]; other site 272563003009 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 272563003010 DNA-binding site [nucleotide binding]; DNA binding site 272563003011 RNA-binding motif; other site 272563003012 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 272563003013 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563003014 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 272563003015 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 272563003016 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 272563003017 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 272563003018 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 272563003019 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563003020 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 272563003021 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272563003022 active site 272563003023 DNA polymerase IV; Validated; Region: PRK02406 272563003024 DNA binding site [nucleotide binding] 272563003025 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 272563003026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563003027 Walker A/P-loop; other site 272563003028 ATP binding site [chemical binding]; other site 272563003029 Q-loop/lid; other site 272563003030 ABC transporter signature motif; other site 272563003031 Walker B; other site 272563003032 D-loop; other site 272563003033 H-loop/switch region; other site 272563003034 FOG: CBS domain [General function prediction only]; Region: COG0517 272563003035 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 272563003036 ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism]; Region: ArtM; COG4160 272563003037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563003038 dimer interface [polypeptide binding]; other site 272563003039 conserved gate region; other site 272563003040 putative PBP binding loops; other site 272563003041 ABC-ATPase subunit interface; other site 272563003042 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 272563003043 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272563003044 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS is disrupted by the insertion of a prophage. 272563003045 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 272563003046 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 272563003047 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 272563003048 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 272563003049 Int/Topo IB signature motif; other site 272563003050 Uncharacterized conserved proteins (DUF2216); Region: DUF2216; pfam10226 272563003051 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 272563003052 Plant specific eukaryotic initiation factor 4B; Region: eIF-4B; pfam06273 272563003053 T5orf172 domain; Region: T5orf172; pfam10544 272563003054 SAP domain; Region: SAP; pfam02037 272563003055 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 272563003056 non-specific DNA binding site [nucleotide binding]; other site 272563003057 salt bridge; other site 272563003058 sequence-specific DNA binding site [nucleotide binding]; other site 272563003059 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 272563003060 non-specific DNA binding site [nucleotide binding]; other site 272563003061 salt bridge; other site 272563003062 sequence-specific DNA binding site [nucleotide binding]; other site 272563003063 ORF6N domain; Region: ORF6N; pfam10543 272563003064 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563003065 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 272563003066 non-specific DNA binding site [nucleotide binding]; other site 272563003067 salt bridge; other site 272563003068 sequence-specific DNA binding site [nucleotide binding]; other site 272563003069 Helix-turn-helix domain; Region: HTH_17; pfam12728 272563003070 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 272563003071 RecT family; Region: RecT; cl04285 272563003072 NUMOD1 domain; Region: NUMOD1; pfam07453 272563003073 Domain of unknown function (DUF3797); Region: DUF3797; pfam12677 272563003074 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 272563003075 cofactor binding site; other site 272563003076 DNA binding site [nucleotide binding] 272563003077 substrate interaction site [chemical binding]; other site 272563003078 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 272563003079 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 272563003080 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272563003081 Ligand Binding Site [chemical binding]; other site 272563003082 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 272563003083 metal binding site [ion binding]; metal-binding site 272563003084 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 272563003085 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 272563003086 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 272563003087 AntA/AntB antirepressor; Region: AntA; pfam08346 272563003088 PSP1 C-terminal conserved region; Region: PSP1; cl00770 272563003089 Uncharacterized conserved protein [Function unknown]; Region: COG5484 272563003090 Helix-turn-helix domain; Region: HTH_28; pfam13518 272563003091 Phage terminase large subunit; Region: Terminase_3; cl12054 272563003092 Terminase-like family; Region: Terminase_6; pfam03237 272563003093 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 272563003094 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 272563003095 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 272563003096 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 272563003097 Bacteriophage HK97-gp10, putative tail-component; Region: HK97-gp10_like; pfam04883 272563003098 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 272563003099 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 272563003100 Phage XkdN-like protein; Region: XkdN; pfam08890 272563003101 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 272563003102 Phage-related minor tail protein [Function unknown]; Region: COG5281 272563003103 tape measure domain; Region: tape_meas_nterm; TIGR02675 272563003104 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272563003105 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 272563003106 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272563003107 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563003108 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 272563003109 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 272563003110 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 272563003111 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 272563003112 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 272563003113 Glycine rich protein; Region: Gly_rich; pfam12810 272563003114 Mer2; Region: Mer2; pfam09074 272563003115 Haemolysin XhlA; Region: XhlA; pfam10779 272563003116 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 272563003117 active site 272563003118 metal binding site [ion binding]; metal-binding site 272563003119 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 272563003120 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563003121 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 272563003122 UbiA family of prenyltransferases (PTases), Unknown subgroup; Region: PT_UbiA_2; cd13963 272563003123 putative active site [active] 272563003124 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563003125 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 272563003126 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563003127 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563003128 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 272563003129 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 272563003130 RNA binding site [nucleotide binding]; other site 272563003131 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 272563003132 RNA binding site [nucleotide binding]; other site 272563003133 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 272563003134 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 272563003135 RNA binding site [nucleotide binding]; other site 272563003136 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; cd00164 272563003137 RNA binding site [nucleotide binding]; other site 272563003138 putative hydrolase; Validated; Region: PRK09248 272563003139 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 272563003140 active site 272563003141 2-isopropylmalate synthase; Validated; Region: PRK03739 272563003142 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 272563003143 active site 272563003144 catalytic residues [active] 272563003145 metal binding site [ion binding]; metal-binding site 272563003146 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 272563003147 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 272563003148 substrate binding site [chemical binding]; other site 272563003149 ligand binding site [chemical binding]; other site 272563003150 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 272563003151 substrate binding site [chemical binding]; other site 272563003152 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 272563003153 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 272563003154 CoenzymeA binding site [chemical binding]; other site 272563003155 subunit interaction site [polypeptide binding]; other site 272563003156 PHB binding site; other site 272563003157 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272563003158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563003159 catalytic residue [active] 272563003160 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 272563003161 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 272563003162 putative ligand binding site [chemical binding]; other site 272563003163 NAD binding site [chemical binding]; other site 272563003164 dimerization interface [polypeptide binding]; other site 272563003165 catalytic site [active] 272563003166 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 272563003167 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 272563003168 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 272563003169 putative active site [active] 272563003170 heme pocket [chemical binding]; other site 272563003171 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 272563003172 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 272563003173 putative active site [active] 272563003174 heme pocket [chemical binding]; other site 272563003175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563003176 metal binding site [ion binding]; metal-binding site 272563003177 active site 272563003178 I-site; other site 272563003179 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 272563003180 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 272563003181 hypothetical protein; Provisional; Region: PRK00955 272563003182 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272563003183 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 272563003184 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272563003185 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 272563003186 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272563003187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563003188 dimer interface [polypeptide binding]; other site 272563003189 conserved gate region; other site 272563003190 putative PBP binding loops; other site 272563003191 ABC-ATPase subunit interface; other site 272563003192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563003193 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563003194 Walker A/P-loop; other site 272563003195 ATP binding site [chemical binding]; other site 272563003196 Q-loop/lid; other site 272563003197 ABC transporter signature motif; other site 272563003198 Walker B; other site 272563003199 D-loop; other site 272563003200 H-loop/switch region; other site 272563003201 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 272563003202 putative deacylase active site [active] 272563003203 fumarate hydratase; Provisional; Region: PRK06246 272563003204 Fumarase C-terminus; Region: Fumerase_C; cl00795 272563003205 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 272563003206 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272563003207 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272563003208 putative NAD(P) binding site [chemical binding]; other site 272563003209 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563003210 Coenzyme A binding pocket [chemical binding]; other site 272563003211 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 272563003212 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 272563003213 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 272563003214 S1 domain; Region: S1_2; pfam13509 272563003215 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272563003216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563003217 DNA-binding site [nucleotide binding]; DNA binding site 272563003218 UTRA domain; Region: UTRA; pfam07702 272563003219 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 272563003220 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 272563003221 active site 272563003222 dimer interface [polypeptide binding]; other site 272563003223 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 272563003224 active site 272563003225 trimer interface [polypeptide binding]; other site 272563003226 allosteric site; other site 272563003227 active site lid [active] 272563003228 hexamer (dimer of trimers) interface [polypeptide binding]; other site 272563003229 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563003230 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 272563003231 active site 272563003232 phosphorylation site [posttranslational modification] 272563003233 intermolecular recognition site; other site 272563003234 dimerization interface [polypeptide binding]; other site 272563003235 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 272563003236 DNA binding site [nucleotide binding] 272563003237 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563003238 HAMP domain; Region: HAMP; pfam00672 272563003239 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 272563003240 dimer interface [polypeptide binding]; other site 272563003241 phosphorylation site [posttranslational modification] 272563003242 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 272563003243 ATP binding site [chemical binding]; other site 272563003244 Mg2+ binding site [ion binding]; other site 272563003245 G-X-G motif; other site 272563003246 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 272563003247 PAS fold; Region: PAS_3; pfam08447 272563003248 putative active site [active] 272563003249 heme pocket [chemical binding]; other site 272563003250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563003251 metal binding site [ion binding]; metal-binding site 272563003252 active site 272563003253 I-site; other site 272563003254 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563003255 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 272563003256 DNA binding residues [nucleotide binding] 272563003257 dimer interface [polypeptide binding]; other site 272563003258 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272563003259 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563003260 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563003261 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563003262 Walker A/P-loop; other site 272563003263 ATP binding site [chemical binding]; other site 272563003264 Q-loop/lid; other site 272563003265 ABC transporter signature motif; other site 272563003266 Walker B; other site 272563003267 D-loop; other site 272563003268 H-loop/switch region; other site 272563003269 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563003270 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563003271 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 272563003272 Walker A/P-loop; other site 272563003273 ATP binding site [chemical binding]; other site 272563003274 Q-loop/lid; other site 272563003275 ABC transporter signature motif; other site 272563003276 Walker B; other site 272563003277 D-loop; other site 272563003278 H-loop/switch region; other site 272563003279 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 272563003280 putative metal binding residues [ion binding]; other site 272563003281 signature motif; other site 272563003282 dimer interface [polypeptide binding]; other site 272563003283 active site 272563003284 polyP binding site; other site 272563003285 substrate binding site [chemical binding]; other site 272563003286 acceptor-phosphate pocket; other site 272563003287 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272563003288 CotH protein; Region: CotH; pfam08757 272563003289 Uncharacterized conserved protein (DUF2042); Region: DUF2042; cl10727 272563003290 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563003291 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563003292 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272563003293 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 272563003294 non-specific DNA binding site [nucleotide binding]; other site 272563003295 salt bridge; other site 272563003296 sequence-specific DNA binding site [nucleotide binding]; other site 272563003297 Cupin domain; Region: Cupin_2; pfam07883 272563003298 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272563003299 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 272563003300 Walker A/P-loop; other site 272563003301 ATP binding site [chemical binding]; other site 272563003302 Q-loop/lid; other site 272563003303 ABC transporter signature motif; other site 272563003304 Walker B; other site 272563003305 D-loop; other site 272563003306 H-loop/switch region; other site 272563003307 TOBE domain; Region: TOBE_2; pfam08402 272563003308 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272563003309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563003310 dimer interface [polypeptide binding]; other site 272563003311 conserved gate region; other site 272563003312 putative PBP binding loops; other site 272563003313 ABC-ATPase subunit interface; other site 272563003314 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272563003315 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563003316 dimer interface [polypeptide binding]; other site 272563003317 conserved gate region; other site 272563003318 putative PBP binding loops; other site 272563003319 ABC-ATPase subunit interface; other site 272563003320 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272563003321 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 272563003322 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 272563003323 metal binding site [ion binding]; metal-binding site 272563003324 nucleotidyl binding site; other site 272563003325 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 272563003326 NodB motif; other site 272563003327 putative active site [active] 272563003328 putative catalytic site [active] 272563003329 putative Zn binding site [ion binding]; other site 272563003330 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272563003331 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 272563003332 DXD motif; other site 272563003333 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 272563003334 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 272563003335 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 272563003336 active site 272563003337 homodimer interface [polypeptide binding]; other site 272563003338 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 272563003339 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003340 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003341 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003342 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272563003343 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 272563003344 active site 272563003345 metal binding site [ion binding]; metal-binding site 272563003346 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003347 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003348 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003349 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272563003350 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 272563003351 active site 272563003352 metal binding site [ion binding]; metal-binding site 272563003353 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272563003354 Part of AAA domain; Region: AAA_19; pfam13245 272563003355 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 272563003356 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 272563003357 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 272563003358 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl19914 272563003359 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 272563003360 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 272563003361 Part of AAA domain; Region: AAA_19; pfam13245 272563003362 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 272563003363 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 272563003364 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 272563003365 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 272563003366 active site 272563003367 metal binding site [ion binding]; metal-binding site 272563003368 DNA binding site [nucleotide binding] 272563003369 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 272563003370 exonuclease SbcC; Region: sbcc; TIGR00618 272563003371 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563003372 Walker A/P-loop; other site 272563003373 ATP binding site [chemical binding]; other site 272563003374 Q-loop/lid; other site 272563003375 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 272563003376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563003377 ABC transporter signature motif; other site 272563003378 Walker B; other site 272563003379 D-loop; other site 272563003380 H-loop/switch region; other site 272563003381 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272563003382 Domain of unknown function DUF21; Region: DUF21; pfam01595 272563003383 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 272563003384 Transporter associated domain; Region: CorC_HlyC; smart01091 272563003385 Domain of unknown function DUF20; Region: UPF0118; cl00465 272563003386 peptidase T-like protein; Region: PepT-like; TIGR01883 272563003387 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 272563003388 metal binding site [ion binding]; metal-binding site 272563003389 dimer interface [polypeptide binding]; other site 272563003390 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003391 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003392 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003393 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 272563003394 active site 272563003395 metal binding site [ion binding]; metal-binding site 272563003396 homotetramer interface [polypeptide binding]; other site 272563003397 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 272563003398 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563003399 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563003400 Walker A/P-loop; other site 272563003401 ATP binding site [chemical binding]; other site 272563003402 Q-loop/lid; other site 272563003403 ABC transporter signature motif; other site 272563003404 Walker B; other site 272563003405 D-loop; other site 272563003406 H-loop/switch region; other site 272563003407 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 272563003408 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 272563003409 putative deacylase active site [active] 272563003410 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272563003411 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 272563003412 FAD binding site [chemical binding]; other site 272563003413 homotetramer interface [polypeptide binding]; other site 272563003414 substrate binding pocket [chemical binding]; other site 272563003415 catalytic base [active] 272563003416 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272563003417 Ligand binding site [chemical binding]; other site 272563003418 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272563003419 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272563003420 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272563003421 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 272563003422 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 272563003423 substrate binding site [chemical binding]; other site 272563003424 oxyanion hole (OAH) forming residues; other site 272563003425 trimer interface [polypeptide binding]; other site 272563003426 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 272563003427 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 272563003428 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272563003429 putative acyltransferase; Provisional; Region: PRK05790 272563003430 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 272563003431 dimer interface [polypeptide binding]; other site 272563003432 active site 272563003433 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272563003434 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272563003435 active site 272563003436 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 272563003437 acyl carrier protein; Provisional; Region: acpP; PRK00982 272563003438 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272563003439 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272563003440 DNA binding site [nucleotide binding] 272563003441 domain linker motif; other site 272563003442 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 272563003443 dimerization interface [polypeptide binding]; other site 272563003444 effector binding site; other site 272563003445 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 272563003446 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563003447 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 272563003448 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 272563003449 active site 272563003450 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 272563003451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563003452 DNA-binding site [nucleotide binding]; DNA binding site 272563003453 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 272563003454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563003455 homodimer interface [polypeptide binding]; other site 272563003456 catalytic residue [active] 272563003457 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 272563003458 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 272563003459 oligomer interface [polypeptide binding]; other site 272563003460 putative active site [active] 272563003461 metal binding site [ion binding]; metal-binding site 272563003462 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272563003463 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563003464 DNA-binding site [nucleotide binding]; DNA binding site 272563003465 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 272563003466 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 272563003467 active pocket/dimerization site; other site 272563003468 active site 272563003469 phosphorylation site [posttranslational modification] 272563003470 BtpA family; Region: BtpA; cl00440 272563003471 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 272563003472 active site 272563003473 phosphorylation site [posttranslational modification] 272563003474 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 272563003475 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 272563003476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563003477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563003478 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272563003479 dimerization interface [polypeptide binding]; other site 272563003480 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272563003481 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 272563003482 dimer interface [polypeptide binding]; other site 272563003483 putative functional site; other site 272563003484 putative MPT binding site; other site 272563003485 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 272563003486 Walker A motif; other site 272563003487 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 272563003488 active site 272563003489 P-loop; other site 272563003490 phosphorylation site [posttranslational modification] 272563003491 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563003492 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563003493 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 272563003494 Walker A/P-loop; other site 272563003495 ATP binding site [chemical binding]; other site 272563003496 Q-loop/lid; other site 272563003497 ABC transporter signature motif; other site 272563003498 Walker B; other site 272563003499 D-loop; other site 272563003500 H-loop/switch region; other site 272563003501 Sodium/glutamate symporter; Region: Glt_symporter; cl19414 272563003502 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563003503 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 272563003504 metal binding site [ion binding]; metal-binding site 272563003505 putative dimer interface [polypeptide binding]; other site 272563003506 zinc transporter ZupT; Provisional; Region: PRK04201 272563003507 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 272563003508 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563003509 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 272563003510 active site 272563003511 phosphorylation site [posttranslational modification] 272563003512 intermolecular recognition site; other site 272563003513 dimerization interface [polypeptide binding]; other site 272563003514 LytTr DNA-binding domain; Region: LytTR; smart00850 272563003515 GHKL domain; Region: HATPase_c_5; pfam14501 272563003516 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 272563003517 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 272563003518 active site 272563003519 DNA binding site [nucleotide binding] 272563003520 Int/Topo IB signature motif; other site 272563003521 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 272563003522 Helix-turn-helix domain; Region: HTH_16; pfam12645 272563003523 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 272563003524 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 272563003525 DNA binding residues [nucleotide binding] 272563003526 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563003527 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563003528 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563003529 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 272563003530 Walker A/P-loop; other site 272563003531 ATP binding site [chemical binding]; other site 272563003532 Q-loop/lid; other site 272563003533 ABC transporter signature motif; other site 272563003534 Walker B; other site 272563003535 D-loop; other site 272563003536 H-loop/switch region; other site 272563003537 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563003538 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 272563003539 dimer interface [polypeptide binding]; other site 272563003540 phosphorylation site [posttranslational modification] 272563003541 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 272563003542 ATP binding site [chemical binding]; other site 272563003543 Mg2+ binding site [ion binding]; other site 272563003544 G-X-G motif; other site 272563003545 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563003546 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 272563003547 active site 272563003548 phosphorylation site [posttranslational modification] 272563003549 intermolecular recognition site; other site 272563003550 dimerization interface [polypeptide binding]; other site 272563003551 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 272563003552 DNA binding site [nucleotide binding] 272563003553 Helix-turn-helix domain; Region: HTH_17; pfam12728 272563003554 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 272563003555 non-specific DNA binding site [nucleotide binding]; other site 272563003556 salt bridge; other site 272563003557 sequence-specific DNA binding site [nucleotide binding]; other site 272563003558 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 272563003559 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl19391 272563003560 Helix-turn-helix domain; Region: HTH_16; pfam12645 272563003561 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 272563003562 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 272563003563 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 272563003564 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 272563003565 Antirestriction protein (ArdA); Region: ArdA; pfam07275 272563003566 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 272563003567 Domain of unknown function (DUF955); Region: DUF955; cl01076 272563003568 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 272563003569 YodL-like; Region: YodL; pfam14191 272563003570 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 272563003571 DNA topoisomerase III; Provisional; Region: PRK07726 272563003572 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 272563003573 active site 272563003574 putative interdomain interaction site [polypeptide binding]; other site 272563003575 putative metal-binding site [ion binding]; other site 272563003576 putative nucleotide binding site [chemical binding]; other site 272563003577 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 272563003578 domain I; other site 272563003579 DNA binding groove [nucleotide binding] 272563003580 phosphate binding site [ion binding]; other site 272563003581 domain II; other site 272563003582 domain III; other site 272563003583 nucleotide binding site [chemical binding]; other site 272563003584 catalytic site [active] 272563003585 domain IV; other site 272563003586 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 272563003587 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 272563003588 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272563003589 TIGR02594 family protein; Region: TIGR02594 272563003590 DNA methylase; Region: N6_N4_Mtase; pfam01555 272563003591 AAA-like domain; Region: AAA_10; pfam12846 272563003592 PrgI family protein; Region: PrgI; pfam12666 272563003593 Maff2 family; Region: Maff2; pfam12750 272563003594 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 272563003595 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 272563003596 Walker A motif; other site 272563003597 ATP binding site [chemical binding]; other site 272563003598 Walker B motif; other site 272563003599 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 272563003600 Helix-turn-helix domain; Region: HTH_36; pfam13730 272563003601 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 272563003602 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272563003603 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 272563003604 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 272563003605 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563003606 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 272563003607 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272563003608 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 272563003609 non-specific DNA binding site [nucleotide binding]; other site 272563003610 salt bridge; other site 272563003611 sequence-specific DNA binding site [nucleotide binding]; other site 272563003612 Cupin domain; Region: Cupin_2; pfam07883 272563003613 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272563003614 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 272563003615 putative active site [active] 272563003616 putative metal binding site [ion binding]; other site 272563003617 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 272563003618 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 272563003619 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272563003620 FMN binding site [chemical binding]; other site 272563003621 dimer interface [polypeptide binding]; other site 272563003622 Nitroreductase family; Region: Nitroreductase; pfam00881 272563003623 FMN binding site [chemical binding]; other site 272563003624 dimer interface [polypeptide binding]; other site 272563003625 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563003626 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563003627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 272563003628 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 272563003629 non-specific DNA binding site [nucleotide binding]; other site 272563003630 salt bridge; other site 272563003631 sequence-specific DNA binding site [nucleotide binding]; other site 272563003632 DNA polymerase I; Provisional; Region: PRK05755 272563003633 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272563003634 active site 272563003635 metal binding site 1 [ion binding]; metal-binding site 272563003636 putative 5' ssDNA interaction site; other site 272563003637 metal binding site 3; metal-binding site 272563003638 metal binding site 2 [ion binding]; metal-binding site 272563003639 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272563003640 putative DNA binding site [nucleotide binding]; other site 272563003641 putative metal binding site [ion binding]; other site 272563003642 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 272563003643 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272563003644 active site 272563003645 DNA binding site [nucleotide binding] 272563003646 catalytic site [active] 272563003647 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 272563003648 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 272563003649 CoA-binding site [chemical binding]; other site 272563003650 ATP-binding [chemical binding]; other site 272563003651 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272563003652 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 272563003653 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272563003654 catalytic residue [active] 272563003655 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272563003656 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 272563003657 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 272563003658 metal-binding site [ion binding] 272563003659 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 272563003660 dimer interface [polypeptide binding]; other site 272563003661 active site 272563003662 metal binding site [ion binding]; metal-binding site 272563003663 glutathione binding site [chemical binding]; other site 272563003664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 272563003665 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563003666 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563003667 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563003668 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272563003669 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563003670 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 272563003671 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 272563003672 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272563003673 SLBB domain; Region: SLBB; pfam10531 272563003674 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 272563003675 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 272563003676 FMN-binding domain; Region: FMN_bind; cl01081 272563003677 electron transport complex RsxE subunit; Provisional; Region: PRK12405 272563003678 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 272563003679 ferredoxin; Validated; Region: PRK07118 272563003680 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 272563003681 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563003682 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563003683 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 272563003684 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 272563003685 active site 272563003686 dimer interface [polypeptide binding]; other site 272563003687 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 272563003688 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 272563003689 MPN+ (JAMM) motif; other site 272563003690 Zinc-binding site [ion binding]; other site 272563003691 rod shape-determining protein MreB; Provisional; Region: PRK13927 272563003692 MreB and similar proteins; Region: MreB_like; cd10225 272563003693 nucleotide binding site [chemical binding]; other site 272563003694 Mg binding site [ion binding]; other site 272563003695 putative protofilament interaction site [polypeptide binding]; other site 272563003696 RodZ interaction site [polypeptide binding]; other site 272563003697 rod shape-determining protein MreC; Provisional; Region: PRK13922 272563003698 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 272563003699 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 272563003700 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 272563003701 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272563003702 septum formation inhibitor; Reviewed; Region: minC; PRK00513 272563003703 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 272563003704 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 272563003705 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 272563003706 P-loop; other site 272563003707 ADP binding residues [chemical binding]; other site 272563003708 Switch I; other site 272563003709 Switch II; other site 272563003710 cell division topological specificity factor MinE; Provisional; Region: PRK13987 272563003711 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 272563003712 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 272563003713 active site 272563003714 dimer interfaces [polypeptide binding]; other site 272563003715 catalytic residues [active] 272563003716 Transcriptional regulator PadR-like family; Region: PadR; cl17335 272563003717 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272563003718 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272563003719 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563003720 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272563003721 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 272563003722 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 272563003723 B12 binding site [chemical binding]; other site 272563003724 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 272563003725 FeS/SAM binding site; other site 272563003726 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 272563003727 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 272563003728 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 272563003729 homodimer interface [polypeptide binding]; other site 272563003730 oligonucleotide binding site [chemical binding]; other site 272563003731 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 272563003732 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 272563003733 Protein of unknown function (DUF464); Region: DUF464; pfam04327 272563003734 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 272563003735 GTPase CgtA; Reviewed; Region: obgE; PRK12297 272563003736 GTP1/OBG; Region: GTP1_OBG; pfam01018 272563003737 Obg GTPase; Region: Obg; cd01898 272563003738 G1 box; other site 272563003739 GTP/Mg2+ binding site [chemical binding]; other site 272563003740 Switch I region; other site 272563003741 G2 box; other site 272563003742 G3 box; other site 272563003743 Switch II region; other site 272563003744 G4 box; other site 272563003745 G5 box; other site 272563003746 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 272563003747 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 272563003748 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 272563003749 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 272563003750 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272563003751 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 272563003752 active site 272563003753 DNA binding site [nucleotide binding] 272563003754 Int/Topo IB signature motif; other site 272563003755 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 272563003756 Nucleoside recognition; Region: Gate; pfam07670 272563003757 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272563003758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563003759 DNA-binding site [nucleotide binding]; DNA binding site 272563003760 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 272563003761 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 272563003762 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272563003763 Ligand binding site [chemical binding]; other site 272563003764 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 272563003765 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272563003766 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272563003767 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272563003768 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272563003769 FAD binding domain; Region: FAD_binding_4; pfam01565 272563003770 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 272563003771 hypothetical protein; Provisional; Region: PRK13670 272563003772 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 272563003773 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 272563003774 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 272563003775 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 272563003776 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 272563003777 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 272563003778 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 272563003779 putative phosphate acyltransferase; Provisional; Region: PRK05331 272563003780 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272563003781 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 272563003782 dimer interface [polypeptide binding]; other site 272563003783 active site 272563003784 CoA binding pocket [chemical binding]; other site 272563003785 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 272563003786 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 272563003787 FMN binding site [chemical binding]; other site 272563003788 substrate binding site [chemical binding]; other site 272563003789 putative catalytic residue [active] 272563003790 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 272563003791 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272563003792 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272563003793 NAD(P) binding site [chemical binding]; other site 272563003794 homotetramer interface [polypeptide binding]; other site 272563003795 homodimer interface [polypeptide binding]; other site 272563003796 active site 272563003797 acyl carrier protein; Provisional; Region: acpP; PRK00982 272563003798 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272563003799 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 272563003800 dimer interface [polypeptide binding]; other site 272563003801 active site 272563003802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563003803 metal binding site [ion binding]; metal-binding site 272563003804 active site 272563003805 I-site; other site 272563003806 PAS domain; Region: PAS; smart00091 272563003807 PAS domain S-box; Region: sensory_box; TIGR00229 272563003808 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 272563003809 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563003810 Walker A motif; other site 272563003811 ATP binding site [chemical binding]; other site 272563003812 Walker B motif; other site 272563003813 arginine finger; other site 272563003814 TSCPD domain; Region: TSCPD; cl14834 272563003815 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 272563003816 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 272563003817 catalytic triad [active] 272563003818 amino acid transporter; Region: 2A0306; TIGR00909 272563003819 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 272563003820 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272563003821 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563003822 Coenzyme A binding pocket [chemical binding]; other site 272563003823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272563003824 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 272563003825 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; cl18944 272563003826 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 272563003827 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; pfam09548 272563003828 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 272563003829 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 272563003830 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 272563003831 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 272563003832 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 272563003833 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 272563003834 Asp23 family; Region: Asp23; pfam03780 272563003835 transcription antitermination factor NusB; Region: nusB; TIGR01951 272563003836 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 272563003837 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272563003838 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 272563003839 generic binding surface II; other site 272563003840 generic binding surface I; other site 272563003841 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 272563003842 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272563003843 substrate binding pocket [chemical binding]; other site 272563003844 chain length determination region; other site 272563003845 substrate-Mg2+ binding site; other site 272563003846 catalytic residues [active] 272563003847 aspartate-rich region 1; other site 272563003848 active site lid residues [active] 272563003849 aspartate-rich region 2; other site 272563003850 Divergent PAP2 family; Region: DUF212; pfam02681 272563003851 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272563003852 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 272563003853 TPP-binding site; other site 272563003854 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 272563003855 PYR/PP interface [polypeptide binding]; other site 272563003856 dimer interface [polypeptide binding]; other site 272563003857 TPP binding site [chemical binding]; other site 272563003858 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272563003859 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 272563003860 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 272563003861 RNA binding surface [nucleotide binding]; other site 272563003862 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 272563003863 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272563003864 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 272563003865 Walker A/P-loop; other site 272563003866 ATP binding site [chemical binding]; other site 272563003867 Q-loop/lid; other site 272563003868 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 272563003869 ABC transporter signature motif; other site 272563003870 Walker B; other site 272563003871 D-loop; other site 272563003872 H-loop/switch region; other site 272563003873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563003874 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272563003875 Coenzyme A binding pocket [chemical binding]; other site 272563003876 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 272563003877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563003878 Coenzyme A binding pocket [chemical binding]; other site 272563003879 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272563003880 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 272563003881 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 272563003882 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 272563003883 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 272563003884 active site 272563003885 phosphorylation site [posttranslational modification] 272563003886 intermolecular recognition site; other site 272563003887 dimerization interface [polypeptide binding]; other site 272563003888 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 272563003889 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 272563003890 Thiamine pyrophosphokinase; Region: TPK; cd07995 272563003891 active site 272563003892 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 272563003893 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 272563003894 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272563003895 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272563003896 Ligand binding site; other site 272563003897 Putative Catalytic site; other site 272563003898 DXD motif; other site 272563003899 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 272563003900 Mg++ binding site [ion binding]; other site 272563003901 putative catalytic motif [active] 272563003902 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 272563003903 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 272563003904 dimer interface [polypeptide binding]; other site 272563003905 ADP-ribose binding site [chemical binding]; other site 272563003906 active site 272563003907 nudix motif; other site 272563003908 metal binding site [ion binding]; metal-binding site 272563003909 Integral membrane protein DUF95; Region: DUF95; cl00572 272563003910 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 272563003911 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 272563003912 active site 272563003913 DNA binding site [nucleotide binding] 272563003914 Int/Topo IB signature motif; other site 272563003915 phosphopentomutase; Provisional; Region: PRK05362 272563003916 purine nucleoside phosphorylase; Provisional; Region: PRK08202 272563003917 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 272563003918 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 272563003919 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272563003920 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272563003921 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 272563003922 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 272563003923 dimerization interface [polypeptide binding]; other site 272563003924 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272563003925 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 272563003926 S-adenosylmethionine binding site [chemical binding]; other site 272563003927 putative protease; Provisional; Region: PRK15452 272563003928 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272563003929 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272563003930 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 272563003931 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272563003932 Evidence 7 : Gene remnant 272563003933 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272563003934 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272563003935 catalytic residues [active] 272563003936 catalytic nucleophile [active] 272563003937 Recombinase; Region: Recombinase; pfam07508 272563003938 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272563003939 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 272563003940 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 272563003941 TPR motif; other site 272563003942 TPR repeat; Region: TPR_11; pfam13414 272563003943 binding surface 272563003944 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003945 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003946 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563003947 Evidence 7 : Gene remnant; PubMedId : 15673505,15691969, 16547044, 17322187, 17890338,18708505,3972994 272563003948 Evidence 7 : Gene remnant 272563003949 Penicillinase repressor; Region: Penicillinase_R; pfam03965 272563003950 VanZ like family; Region: VanZ; pfam04892 272563003951 elongation factor P; Validated; Region: PRK00529 272563003952 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272563003953 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 272563003954 RNA binding site [nucleotide binding]; other site 272563003955 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 272563003956 RNA binding site [nucleotide binding]; other site 272563003957 Phage terminase large subunit (GpA); Region: Terminase_GpA; cl19377 272563003958 ribonuclease III; Reviewed; Region: rnc; PRK00102 272563003959 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 272563003960 dimerization interface [polypeptide binding]; other site 272563003961 active site 272563003962 metal binding site [ion binding]; metal-binding site 272563003963 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 272563003964 dsRNA binding site [nucleotide binding]; other site 272563003965 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 272563003966 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272563003967 FeS/SAM binding site; other site 272563003968 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272563003969 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 272563003970 Walker A/P-loop; other site 272563003971 ATP binding site [chemical binding]; other site 272563003972 Q-loop/lid; other site 272563003973 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 272563003974 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 272563003975 ABC transporter signature motif; other site 272563003976 Walker B; other site 272563003977 D-loop; other site 272563003978 H-loop/switch region; other site 272563003979 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; cl03075 272563003980 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 272563003981 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 272563003982 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 272563003983 putative DNA-binding protein; Validated; Region: PRK00118 272563003984 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563003985 signal recognition particle protein; Provisional; Region: PRK10867 272563003986 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 272563003987 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 272563003988 P loop; other site 272563003989 GTP binding site [chemical binding]; other site 272563003990 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272563003991 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 272563003992 KH domain; Region: KH_4; pfam13083 272563003993 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 272563003994 RimM N-terminal domain; Region: RimM; pfam01782 272563003995 PRC-barrel domain; Region: PRC; pfam05239 272563003996 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 272563003997 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 272563003998 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 272563003999 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 272563004000 GTP/Mg2+ binding site [chemical binding]; other site 272563004001 G4 box; other site 272563004002 G5 box; other site 272563004003 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 272563004004 G1 box; other site 272563004005 G1 box; other site 272563004006 GTP/Mg2+ binding site [chemical binding]; other site 272563004007 G2 box; other site 272563004008 Switch I region; other site 272563004009 Switch I region; other site 272563004010 G2 box; other site 272563004011 G3 box; other site 272563004012 G3 box; other site 272563004013 Switch II region; other site 272563004014 Switch II region; other site 272563004015 G4 box; other site 272563004016 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 272563004017 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 272563004018 ATP cone domain; Region: ATP-cone; pfam03477 272563004019 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272563004020 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 272563004021 active site 272563004022 dimer interface [polypeptide binding]; other site 272563004023 effector binding site; other site 272563004024 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272563004025 RNA/DNA hybrid binding site [nucleotide binding]; other site 272563004026 active site 272563004027 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 272563004028 active site 272563004029 substrate binding site [chemical binding]; other site 272563004030 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 272563004031 FMN binding site [chemical binding]; other site 272563004032 putative catalytic residues [active] 272563004033 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 272563004034 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272563004035 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272563004036 ABC-2 type transporter; Region: ABC2_membrane; cl17235 272563004037 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563004038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563004039 Walker A/P-loop; other site 272563004040 ATP binding site [chemical binding]; other site 272563004041 Q-loop/lid; other site 272563004042 ABC transporter signature motif; other site 272563004043 Walker B; other site 272563004044 D-loop; other site 272563004045 H-loop/switch region; other site 272563004046 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272563004047 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 272563004048 active site 272563004049 phosphorylation site [posttranslational modification] 272563004050 intermolecular recognition site; other site 272563004051 dimerization interface [polypeptide binding]; other site 272563004052 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 272563004053 DNA binding residues [nucleotide binding] 272563004054 dimerization interface [polypeptide binding]; other site 272563004055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272563004056 Histidine kinase; Region: HisKA_3; pfam07730 272563004057 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 272563004058 ATP binding site [chemical binding]; other site 272563004059 Mg2+ binding site [ion binding]; other site 272563004060 G-X-G motif; other site 272563004061 hypothetical protein; Reviewed; Region: PRK12497 272563004062 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 272563004063 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 272563004064 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 272563004065 Walker A motif; other site 272563004066 ATP binding site [chemical binding]; other site 272563004067 Walker B motif; other site 272563004068 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 272563004069 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 272563004070 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 272563004071 DNA topoisomerase I; Validated; Region: PRK05582 272563004072 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 272563004073 active site 272563004074 interdomain interaction site; other site 272563004075 putative metal-binding site [ion binding]; other site 272563004076 nucleotide binding site [chemical binding]; other site 272563004077 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 272563004078 domain I; other site 272563004079 DNA binding groove [nucleotide binding] 272563004080 phosphate binding site [ion binding]; other site 272563004081 domain II; other site 272563004082 domain III; other site 272563004083 nucleotide binding site [chemical binding]; other site 272563004084 catalytic site [active] 272563004085 domain IV; other site 272563004086 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272563004087 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272563004088 CodY GAF-like domain; Region: CodY; pfam06018 272563004089 transcriptional repressor CodY; Validated; Region: PRK04158 272563004090 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 272563004091 recombination factor protein RarA; Reviewed; Region: PRK13342 272563004092 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 272563004093 Walker A motif; other site 272563004094 ATP binding site [chemical binding]; other site 272563004095 Walker B motif; other site 272563004096 arginine finger; other site 272563004097 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272563004098 Predicted acetyltransferase [General function prediction only]; Region: COG3393 272563004099 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 272563004100 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563004101 Coenzyme A binding pocket [chemical binding]; other site 272563004102 Predicted transcriptional regulator [Transcription]; Region: COG1959 272563004103 Rrf2 family protein; Region: rrf2_super; TIGR00738 272563004104 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 272563004105 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563004106 catalytic residue [active] 272563004107 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272563004108 trimerization site [polypeptide binding]; other site 272563004109 active site 272563004110 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 272563004111 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 272563004112 Ligand Binding Site [chemical binding]; other site 272563004113 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272563004114 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 272563004115 motif 1; other site 272563004116 active site 272563004117 motif 2; other site 272563004118 motif 3; other site 272563004119 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 272563004120 DHHA1 domain; Region: DHHA1; pfam02272 272563004121 hypothetical protein; Provisional; Region: PRK05473 272563004122 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 272563004123 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 272563004124 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 272563004125 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272563004126 metal binding site 2 [ion binding]; metal-binding site 272563004127 putative DNA binding helix; other site 272563004128 metal binding site 1 [ion binding]; metal-binding site 272563004129 dimer interface [polypeptide binding]; other site 272563004130 structural Zn2+ binding site [ion binding]; other site 272563004131 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 272563004132 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272563004133 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 272563004134 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 272563004135 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272563004136 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 272563004137 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 272563004138 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 272563004139 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 272563004140 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272563004141 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 272563004142 Peptidase family M50; Region: Peptidase_M50; pfam02163 272563004143 active site 272563004144 putative substrate binding region [chemical binding]; other site 272563004145 ScpA/B protein; Region: ScpA_ScpB; cl00598 272563004146 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 272563004147 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 272563004148 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 272563004149 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563004150 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; cl17220 272563004151 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272563004152 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 272563004153 interface (dimer of trimers) [polypeptide binding]; other site 272563004154 Substrate-binding/catalytic site; other site 272563004155 Zn-binding sites [ion binding]; other site 272563004156 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 272563004157 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 272563004158 homodimer interface [polypeptide binding]; other site 272563004159 metal binding site [ion binding]; metal-binding site 272563004160 NAD-dependent deacetylase; Provisional; Region: PRK00481 272563004161 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563004162 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563004163 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563004164 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563004165 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 272563004166 DNA polymerase III PolC; Validated; Region: polC; PRK00448 272563004167 DNA polymerase III polC-type N-terminus I; Region: DNA_pol3_a_NI; pfam14480 272563004168 DNA polymerase III polC-type N-terminus II; Region: DNA_pol3_a_NII; pfam11490 272563004169 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 272563004170 generic binding surface II; other site 272563004171 generic binding surface I; other site 272563004172 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 272563004173 active site 272563004174 putative PHP Thumb interface [polypeptide binding]; other site 272563004175 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272563004176 active site 272563004177 catalytic site [active] 272563004178 substrate binding site [chemical binding]; other site 272563004179 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272563004180 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 272563004181 Sm and related proteins; Region: Sm_like; cl00259 272563004182 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 272563004183 putative oligomer interface [polypeptide binding]; other site 272563004184 putative RNA binding site [nucleotide binding]; other site 272563004185 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 272563004186 NusA N-terminal domain; Region: NusA_N; pfam08529 272563004187 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 272563004188 RNA binding site [nucleotide binding]; other site 272563004189 homodimer interface [polypeptide binding]; other site 272563004190 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 272563004191 G-X-X-G motif; other site 272563004192 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 272563004193 G-X-X-G motif; other site 272563004194 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 272563004195 putative RNA binding cleft [nucleotide binding]; other site 272563004196 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 272563004197 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272563004198 translation initiation factor IF-2; Region: IF-2; TIGR00487 272563004199 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272563004200 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 272563004201 G1 box; other site 272563004202 putative GEF interaction site [polypeptide binding]; other site 272563004203 GTP/Mg2+ binding site [chemical binding]; other site 272563004204 Switch I region; other site 272563004205 G2 box; other site 272563004206 G3 box; other site 272563004207 Switch II region; other site 272563004208 G4 box; other site 272563004209 G5 box; other site 272563004210 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 272563004211 Translation-initiation factor 2; Region: IF-2; pfam11987 272563004212 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 272563004213 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 272563004214 Evidence 7 : Gene remnant; PubMedId : 19781061 272563004215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563004216 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563004217 Probable transposase; Region: OrfB_IS605; pfam01385 272563004218 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563004219 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 272563004220 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 272563004221 RNA binding site [nucleotide binding]; other site 272563004222 active site 272563004223 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272563004224 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272563004225 active site 272563004226 Riboflavin kinase; Region: Flavokinase; pfam01687 272563004227 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 272563004228 16S/18S rRNA binding site [nucleotide binding]; other site 272563004229 S13e-L30e interaction site [polypeptide binding]; other site 272563004230 25S rRNA binding site [nucleotide binding]; other site 272563004231 EDD domain protein, DegV family; Region: DegV; TIGR00762 272563004232 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272563004233 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 272563004234 RNase E interface [polypeptide binding]; other site 272563004235 trimer interface [polypeptide binding]; other site 272563004236 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272563004237 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 272563004238 RNase E interface [polypeptide binding]; other site 272563004239 trimer interface [polypeptide binding]; other site 272563004240 active site 272563004241 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 272563004242 putative nucleic acid binding region [nucleotide binding]; other site 272563004243 G-X-X-G motif; other site 272563004244 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 272563004245 RNA binding site [nucleotide binding]; other site 272563004246 domain interface; other site 272563004247 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 272563004248 NodB motif; other site 272563004249 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272563004250 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272563004251 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272563004252 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 272563004253 aspartate kinase I; Reviewed; Region: PRK08210 272563004254 AAK_AKi-DapG-BS: Amino Acid Kinase Superfamily (AAK), AKi-DapG; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional class enzyme found in Bacilli; Region: AAK_AKi-DapG-BS; cd04260 272563004255 putative catalytic residues [active] 272563004256 putative nucleotide binding site [chemical binding]; other site 272563004257 putative aspartate binding site [chemical binding]; other site 272563004258 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 272563004259 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 272563004260 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 272563004261 active site 272563004262 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 272563004263 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 272563004264 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563004265 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 272563004266 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 272563004267 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; cl00125 272563004268 active site residue [active] 272563004269 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 272563004270 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272563004271 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 272563004272 FeS/SAM binding site; other site 272563004273 TRAM domain; Region: TRAM; cl01282 272563004274 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272563004275 recombinase A; Provisional; Region: recA; PRK09354 272563004276 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 272563004277 hexamer interface [polypeptide binding]; other site 272563004278 Walker A motif; other site 272563004279 ATP binding site [chemical binding]; other site 272563004280 Walker B motif; other site 272563004281 ribonuclease Y; Region: RNase_Y; TIGR03319 272563004282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272563004283 Zn2+ binding site [ion binding]; other site 272563004284 Mg2+ binding site [ion binding]; other site 272563004285 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 272563004286 ATP binding site [chemical binding]; other site 272563004287 putative Mg++ binding site [ion binding]; other site 272563004288 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272563004289 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 272563004290 Catalytic site [active] 272563004291 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 272563004292 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 272563004293 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 272563004294 active site 272563004295 Int/Topo IB signature motif; other site 272563004296 DNA binding site [nucleotide binding] 272563004297 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 272563004298 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 272563004299 tetramer interface [polypeptide binding]; other site 272563004300 active site 272563004301 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563004302 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; cl17220 272563004303 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563004304 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 272563004305 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 272563004306 active site turn [active] 272563004307 phosphorylation site [posttranslational modification] 272563004308 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563004309 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563004310 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 272563004311 putative active site [active] 272563004312 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272563004313 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 272563004314 NAD binding site [chemical binding]; other site 272563004315 sugar binding site [chemical binding]; other site 272563004316 divalent metal binding site [ion binding]; other site 272563004317 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563004318 dimer interface [polypeptide binding]; other site 272563004319 aspartate aminotransferase; Provisional; Region: PRK07568 272563004320 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 272563004321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563004322 homodimer interface [polypeptide binding]; other site 272563004323 catalytic residue [active] 272563004324 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 272563004325 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 272563004326 nucleotide binding site/active site [active] 272563004327 HIT family signature motif; other site 272563004328 catalytic residue [active] 272563004329 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 272563004330 active site 272563004331 putative catalytic site [active] 272563004332 DNA binding site [nucleotide binding] 272563004333 putative phosphate binding site [ion binding]; other site 272563004334 metal binding site A [ion binding]; metal-binding site 272563004335 AP binding site [nucleotide binding]; other site 272563004336 metal binding site B [ion binding]; metal-binding site 272563004337 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 272563004338 active site 272563004339 catalytic site [active] 272563004340 substrate binding site [chemical binding]; other site 272563004341 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272563004342 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272563004343 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 272563004344 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 272563004345 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl19139 272563004346 Predicted transcriptional regulators [Transcription]; Region: COG1695 272563004347 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 272563004348 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272563004349 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 272563004350 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 272563004351 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 272563004352 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 272563004353 Walker A/P-loop; other site 272563004354 ATP binding site [chemical binding]; other site 272563004355 Q-loop/lid; other site 272563004356 ABC transporter signature motif; other site 272563004357 Walker B; other site 272563004358 D-loop; other site 272563004359 H-loop/switch region; other site 272563004360 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 272563004361 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 272563004362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563004363 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 272563004364 dimer interface [polypeptide binding]; other site 272563004365 phosphorylation site [posttranslational modification] 272563004366 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 272563004367 ATP binding site [chemical binding]; other site 272563004368 Mg2+ binding site [ion binding]; other site 272563004369 G-X-G motif; other site 272563004370 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 272563004371 dimer interface [polypeptide binding]; other site 272563004372 pyridoxal binding site [chemical binding]; other site 272563004373 ATP binding site [chemical binding]; other site 272563004374 Putative amidase domain; Region: Amidase_6; pfam12671 272563004375 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 272563004376 DNA-binding site [nucleotide binding]; DNA binding site 272563004377 RNA-binding motif; other site 272563004378 FOG: CBS domain [General function prediction only]; Region: COG0517 272563004379 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 272563004380 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 272563004381 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 272563004382 Domain of unknown function (DUF955); Region: DUF955; cl01076 272563004383 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563004384 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 272563004385 non-specific DNA binding site [nucleotide binding]; other site 272563004386 salt bridge; other site 272563004387 sequence-specific DNA binding site [nucleotide binding]; other site 272563004388 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 272563004389 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 272563004390 non-specific DNA binding site [nucleotide binding]; other site 272563004391 salt bridge; other site 272563004392 sequence-specific DNA binding site [nucleotide binding]; other site 272563004393 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 272563004394 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 272563004395 Phage XkdN-like protein; Region: XkdN; pfam08890 272563004396 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 272563004397 Phage-related protein [Function unknown]; Region: COG5412 272563004398 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563004399 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 272563004400 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 272563004401 Baseplate J-like protein; Region: Baseplate_J; pfam04865 272563004402 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 272563004403 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 272563004404 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004405 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272563004406 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004407 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004408 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272563004409 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004410 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272563004411 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004412 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 272563004413 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 272563004414 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004415 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004416 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272563004417 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272563004418 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 272563004419 non-specific DNA binding site [nucleotide binding]; other site 272563004420 salt bridge; other site 272563004421 sequence-specific DNA binding site [nucleotide binding]; other site 272563004422 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 272563004423 non-specific DNA binding site [nucleotide binding]; other site 272563004424 salt bridge; other site 272563004425 sequence-specific DNA binding site [nucleotide binding]; other site 272563004426 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563004427 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 272563004428 non-specific DNA binding site [nucleotide binding]; other site 272563004429 salt bridge; other site 272563004430 sequence-specific DNA binding site [nucleotide binding]; other site 272563004431 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 272563004432 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563004433 putative substrate translocation pore; other site 272563004434 Modifier of rudimentary (Mod(r)) protein; Region: Mod_r; pfam07200 272563004435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563004436 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563004437 glycerol kinase; Provisional; Region: glpK; PRK00047 272563004438 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 272563004439 N- and C-terminal domain interface [polypeptide binding]; other site 272563004440 active site 272563004441 MgATP binding site [chemical binding]; other site 272563004442 catalytic site [active] 272563004443 metal binding site [ion binding]; metal-binding site 272563004444 glycerol binding site [chemical binding]; other site 272563004445 homotetramer interface [polypeptide binding]; other site 272563004446 homodimer interface [polypeptide binding]; other site 272563004447 FBP binding site [chemical binding]; other site 272563004448 protein IIAGlc interface [polypeptide binding]; other site 272563004449 Predicted transcriptional regulators [Transcription]; Region: COG1725 272563004450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563004451 DNA-binding site [nucleotide binding]; DNA binding site 272563004452 TrkA-C domain; Region: TrkA_C; pfam02080 272563004453 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 272563004454 putative active site [active] 272563004455 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 272563004456 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 272563004457 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 272563004458 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS appears to have a frameshift mutation around codon 11. 272563004459 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 272563004460 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 272563004461 active site 272563004462 Protein of unknown function (DUF819); Region: DUF819; cl02317 272563004463 Predicted acyl esterases [General function prediction only]; Region: COG2936 272563004464 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 272563004465 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 272563004466 homotrimer interaction site [polypeptide binding]; other site 272563004467 putative active site [active] 272563004468 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272563004469 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272563004470 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 272563004471 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 272563004472 Regulatory protein YrvL; Region: YrvL; pfam14184 272563004473 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_3; cd08770 272563004474 SxDxEG motif; other site 272563004475 putative active site [active] 272563004476 putative metal binding site [ion binding]; other site 272563004477 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 272563004478 homodimer interaction site [polypeptide binding]; other site 272563004479 cofactor binding site; other site 272563004480 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563004481 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272563004482 metal binding site [ion binding]; metal-binding site 272563004483 dimer interface [polypeptide binding]; other site 272563004484 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 272563004485 dimer interface [polypeptide binding]; other site 272563004486 catalytic triad [active] 272563004487 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 272563004488 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 272563004489 catalytic triad [active] 272563004490 conserved cis-peptide bond; other site 272563004491 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 272563004492 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 272563004493 active site 272563004494 catalytic site [active] 272563004495 metal binding site [ion binding]; metal-binding site 272563004496 dimer interface [polypeptide binding]; other site 272563004497 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 272563004498 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 272563004499 acyl-activating enzyme (AAE) consensus motif; other site 272563004500 AMP binding site [chemical binding]; other site 272563004501 OPT oligopeptide transporter protein; Region: OPT; pfam03169 272563004502 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 272563004503 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272563004504 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563004505 ABC transporter; Region: ABC_tran_2; pfam12848 272563004506 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563004507 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 272563004508 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 272563004509 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 272563004510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563004511 DNA-binding site [nucleotide binding]; DNA binding site 272563004512 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 272563004513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563004514 homodimer interface [polypeptide binding]; other site 272563004515 catalytic residue [active] 272563004516 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 272563004517 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272563004518 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272563004519 competence damage-inducible protein A; Provisional; Region: PRK00549 272563004520 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 272563004521 putative MPT binding site; other site 272563004522 Competence-damaged protein; Region: CinA; pfam02464 272563004523 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272563004524 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 272563004525 active site 272563004526 motif I; other site 272563004527 motif II; other site 272563004528 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563004529 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 272563004530 PAS domain; Region: PAS_9; pfam13426 272563004531 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 272563004532 putative active site [active] 272563004533 heme pocket [chemical binding]; other site 272563004534 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 272563004535 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 272563004536 Walker A motif; other site 272563004537 ATP binding site [chemical binding]; other site 272563004538 Walker B motif; other site 272563004539 arginine finger; other site 272563004540 EamA-like transporter family; Region: EamA; pfam00892 272563004541 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272563004542 EamA-like transporter family; Region: EamA; pfam00892 272563004543 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 272563004544 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272563004545 Protein of unknown function, DUF606; Region: DUF606; pfam04657 272563004546 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 272563004547 Ligand Binding Site [chemical binding]; other site 272563004548 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563004549 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563004550 Evidence 7 : Gene remnant 272563004551 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 272563004552 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 272563004553 PAS fold; Region: PAS_3; pfam08447 272563004554 putative active site [active] 272563004555 heme pocket [chemical binding]; other site 272563004556 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272563004557 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563004558 metal binding site [ion binding]; metal-binding site 272563004559 active site 272563004560 I-site; other site 272563004561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563004562 metal binding site [ion binding]; metal-binding site 272563004563 active site 272563004564 I-site; other site 272563004565 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563004566 metal binding site [ion binding]; metal-binding site 272563004567 active site 272563004568 I-site; other site 272563004569 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 272563004570 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 272563004571 PAS fold; Region: PAS_3; pfam08447 272563004572 putative active site [active] 272563004573 heme pocket [chemical binding]; other site 272563004574 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563004575 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 272563004576 DNA binding residues [nucleotide binding] 272563004577 dimer interface [polypeptide binding]; other site 272563004578 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563004579 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272563004580 MgtC family; Region: MgtC; pfam02308 272563004581 Evidence 7 : Gene remnant; PubMedId : 19897889,12741825, 11450855 ; This CDS appears to have a frameshift mutation following codon 102. The frameshift occurs within a homopolymeric tract of (A)7. 272563004582 Predicted transcriptional regulators [Transcription]; Region: COG1733 272563004583 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 272563004584 Predicted acetyltransferase [General function prediction only]; Region: COG3393 272563004585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272563004586 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 272563004587 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272563004588 NodB motif; other site 272563004589 active site 272563004590 catalytic site [active] 272563004591 Cd binding site [ion binding]; other site 272563004592 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272563004593 active site 272563004594 catalytic site [active] 272563004595 substrate binding site [chemical binding]; other site 272563004596 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 272563004597 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 272563004598 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 272563004599 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 272563004600 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 272563004601 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_like; cd09277 272563004602 RNA/DNA hybrid binding site [nucleotide binding]; other site 272563004603 active site 272563004604 peroxiredoxin; Provisional; Region: PRK13189 272563004605 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 272563004606 dimer interface [polypeptide binding]; other site 272563004607 decamer (pentamer of dimers) interface [polypeptide binding]; other site 272563004608 catalytic triad [active] 272563004609 Glyco_18 domain; Region: Glyco_18; smart00636 272563004610 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 272563004611 active site 272563004612 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 272563004613 VanW like protein; Region: VanW; pfam04294 272563004614 G5 domain; Region: G5; pfam07501 272563004615 Evidence 7 : Gene remnant; PubMedId : 16339734,12618438, 8407777 272563004616 IncA protein; Region: IncA; pfam04156 272563004617 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 272563004618 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 272563004619 binding surface 272563004620 TPR motif; other site 272563004621 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 272563004622 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 272563004623 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272563004624 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563004625 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563004626 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 272563004627 MORN repeat; Region: MORN; cl14787 272563004628 MORN repeat; Region: MORN; cl14787 272563004629 CAP-associated N-terminal; Region: CAP_assoc_N; pfam14504 272563004630 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 272563004631 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 272563004632 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272563004633 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 272563004634 NodB motif; other site 272563004635 active site 272563004636 catalytic site [active] 272563004637 metal binding site [ion binding]; metal-binding site 272563004638 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272563004639 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272563004640 glutamine binding [chemical binding]; other site 272563004641 catalytic triad [active] 272563004642 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272563004643 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 272563004644 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272563004645 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; cd00449 272563004646 homodimer interface [polypeptide binding]; other site 272563004647 substrate-cofactor binding pocket; other site 272563004648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563004649 catalytic residue [active] 272563004650 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 272563004651 active site 272563004652 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 272563004653 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 272563004654 substrate binding pocket [chemical binding]; other site 272563004655 dimer interface [polypeptide binding]; other site 272563004656 inhibitor binding site; inhibition site 272563004657 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 272563004658 homooctamer interface [polypeptide binding]; other site 272563004659 active site 272563004660 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 272563004661 catalytic center binding site [active] 272563004662 ATP binding site [chemical binding]; other site 272563004663 DAHP synthetase I family; Region: DAHP_synth_1; cl17225 272563004664 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 272563004665 DNA primase; Validated; Region: dnaG; PRK05667 272563004666 CHC2 zinc finger; Region: zf-CHC2; pfam01807 272563004667 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272563004668 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 272563004669 active site 272563004670 metal binding site [ion binding]; metal-binding site 272563004671 interdomain interaction site; other site 272563004672 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272563004673 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 272563004674 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272563004675 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272563004676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563004677 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272563004678 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 272563004679 DNA binding residues [nucleotide binding] 272563004680 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 272563004681 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 272563004682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 272563004683 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 272563004684 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272563004685 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 272563004686 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272563004687 Zn2+ binding site [ion binding]; other site 272563004688 Mg2+ binding site [ion binding]; other site 272563004689 Protein of unknown function (DUF1648); Region: DUF1648; cl19856 272563004690 Predicted transcriptional regulators [Transcription]; Region: COG1725 272563004691 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563004692 DNA-binding site [nucleotide binding]; DNA binding site 272563004693 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563004694 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 272563004695 active site 272563004696 phosphorylation site [posttranslational modification] 272563004697 intermolecular recognition site; other site 272563004698 dimerization interface [polypeptide binding]; other site 272563004699 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 272563004700 DNA binding site [nucleotide binding] 272563004701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563004702 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 272563004703 dimer interface [polypeptide binding]; other site 272563004704 phosphorylation site [posttranslational modification] 272563004705 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 272563004706 ATP binding site [chemical binding]; other site 272563004707 Mg2+ binding site [ion binding]; other site 272563004708 G-X-G motif; other site 272563004709 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563004710 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563004711 Walker A/P-loop; other site 272563004712 ATP binding site [chemical binding]; other site 272563004713 Q-loop/lid; other site 272563004714 ABC transporter signature motif; other site 272563004715 Walker B; other site 272563004716 D-loop; other site 272563004717 H-loop/switch region; other site 272563004718 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272563004719 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563004720 FtsX-like permease family; Region: FtsX; pfam02687 272563004721 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563004722 FtsX-like permease family; Region: FtsX; pfam02687 272563004723 CRISPR/Cas system-associated transcriptional regulator CasRa; Region: CasRa_I-A; cd09655 272563004724 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563004725 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 272563004726 Beta-lactamase; Region: Beta-lactamase; pfam00144 272563004727 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563004728 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563004729 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563004730 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 272563004731 active site residue [active] 272563004732 Predicted membrane protein [Function unknown]; Region: COG1511 272563004733 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 272563004734 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 272563004735 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563004736 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563004737 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563004738 Walker A/P-loop; other site 272563004739 ATP binding site [chemical binding]; other site 272563004740 Q-loop/lid; other site 272563004741 ABC transporter signature motif; other site 272563004742 Walker B; other site 272563004743 D-loop; other site 272563004744 H-loop/switch region; other site 272563004745 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563004746 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563004747 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 272563004748 Walker A/P-loop; other site 272563004749 ATP binding site [chemical binding]; other site 272563004750 Q-loop/lid; other site 272563004751 ABC transporter signature motif; other site 272563004752 Walker B; other site 272563004753 D-loop; other site 272563004754 H-loop/switch region; other site 272563004755 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 272563004756 iron binding site [ion binding]; other site 272563004757 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 272563004758 Rubrerythrin [Energy production and conversion]; Region: COG1592 272563004759 diiron binding motif [ion binding]; other site 272563004760 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272563004761 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 272563004762 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563004763 substrate binding pocket [chemical binding]; other site 272563004764 membrane-bound complex binding site; other site 272563004765 hinge residues; other site 272563004766 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 272563004767 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563004768 substrate binding pocket [chemical binding]; other site 272563004769 membrane-bound complex binding site; other site 272563004770 hinge residues; other site 272563004771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563004772 metal binding site [ion binding]; metal-binding site 272563004773 active site 272563004774 I-site; other site 272563004775 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 272563004776 FeoA domain; Region: FeoA; pfam04023 272563004777 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 272563004778 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 272563004779 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 272563004780 G1 box; other site 272563004781 GTP/Mg2+ binding site [chemical binding]; other site 272563004782 Switch I region; other site 272563004783 G2 box; other site 272563004784 G3 box; other site 272563004785 Switch II region; other site 272563004786 G4 box; other site 272563004787 G5 box; other site 272563004788 Nucleoside recognition; Region: Gate; pfam07670 272563004789 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272563004790 Nucleoside recognition; Region: Gate; pfam07670 272563004791 Virus attachment protein p12 family; Region: P12; pfam12669 272563004792 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 272563004793 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272563004794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563004795 dimer interface [polypeptide binding]; other site 272563004796 conserved gate region; other site 272563004797 putative PBP binding loops; other site 272563004798 ABC-ATPase subunit interface; other site 272563004799 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272563004800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563004801 Walker A/P-loop; other site 272563004802 ATP binding site [chemical binding]; other site 272563004803 Q-loop/lid; other site 272563004804 ABC transporter signature motif; other site 272563004805 Walker B; other site 272563004806 D-loop; other site 272563004807 H-loop/switch region; other site 272563004808 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272563004809 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 272563004810 substrate binding pocket [chemical binding]; other site 272563004811 membrane-bound complex binding site; other site 272563004812 hinge residues; other site 272563004813 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 272563004814 Predicted transcriptional regulator [Transcription]; Region: COG2378 272563004815 HTH domain; Region: HTH_11; pfam08279 272563004816 WYL domain; Region: WYL; pfam13280 272563004817 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 272563004818 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 272563004819 Walker A/P-loop; other site 272563004820 ATP binding site [chemical binding]; other site 272563004821 Q-loop/lid; other site 272563004822 ABC transporter signature motif; other site 272563004823 Walker B; other site 272563004824 D-loop; other site 272563004825 H-loop/switch region; other site 272563004826 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 272563004827 ectoine/hydroxyectoine ABC transporter, permease protein EhuD; Region: ectoine_ehuD; TIGR03003 272563004828 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563004829 dimer interface [polypeptide binding]; other site 272563004830 conserved gate region; other site 272563004831 putative PBP binding loops; other site 272563004832 ABC-ATPase subunit interface; other site 272563004833 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 272563004834 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 272563004835 PAS domain; Region: PAS_8; pfam13188 272563004836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563004837 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 272563004838 dimer interface [polypeptide binding]; other site 272563004839 phosphorylation site [posttranslational modification] 272563004840 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 272563004841 ATP binding site [chemical binding]; other site 272563004842 Mg2+ binding site [ion binding]; other site 272563004843 G-X-G motif; other site 272563004844 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 272563004845 active site 272563004846 DNA binding site [nucleotide binding] 272563004847 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563004848 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 272563004849 non-specific DNA binding site [nucleotide binding]; other site 272563004850 salt bridge; other site 272563004851 sequence-specific DNA binding site [nucleotide binding]; other site 272563004852 Cupin domain; Region: Cupin_2; pfam07883 272563004853 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 272563004854 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 272563004855 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 272563004856 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 272563004857 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272563004858 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 272563004859 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563004860 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272563004861 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 272563004862 DNA binding residues [nucleotide binding] 272563004863 Evidence 7 : Gene remnant; PubMedId : 19781061 272563004864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563004865 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563004866 Probable transposase; Region: OrfB_IS605; pfam01385 272563004867 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563004868 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 272563004869 intersubunit interface [polypeptide binding]; other site 272563004870 active site 272563004871 catalytic residue [active] 272563004872 Predicted transcriptional regulators [Transcription]; Region: COG1725 272563004873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563004874 DNA-binding site [nucleotide binding]; DNA binding site 272563004875 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563004876 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563004877 Walker A/P-loop; other site 272563004878 ATP binding site [chemical binding]; other site 272563004879 Q-loop/lid; other site 272563004880 ABC transporter signature motif; other site 272563004881 Walker B; other site 272563004882 D-loop; other site 272563004883 H-loop/switch region; other site 272563004884 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563004885 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563004886 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 272563004887 catalytic residues [active] 272563004888 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272563004889 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 272563004890 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563004891 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 272563004892 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 272563004893 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 272563004894 Pantoate-beta-alanine ligase; Region: PanC; cd00560 272563004895 active site 272563004896 ATP-binding site [chemical binding]; other site 272563004897 pantoate-binding site; other site 272563004898 HXXH motif; other site 272563004899 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 272563004900 oligomerization interface [polypeptide binding]; other site 272563004901 active site 272563004902 metal binding site [ion binding]; metal-binding site 272563004903 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 272563004904 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 272563004905 PAS fold; Region: PAS_3; pfam08447 272563004906 putative active site [active] 272563004907 heme pocket [chemical binding]; other site 272563004908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563004909 metal binding site [ion binding]; metal-binding site 272563004910 active site 272563004911 I-site; other site 272563004912 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 272563004913 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 272563004914 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563004915 DNA binding residues [nucleotide binding] 272563004916 dimer interface [polypeptide binding]; other site 272563004917 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 272563004918 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 272563004919 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 272563004920 G1 box; other site 272563004921 GTP/Mg2+ binding site [chemical binding]; other site 272563004922 Switch I region; other site 272563004923 G2 box; other site 272563004924 G3 box; other site 272563004925 Switch II region; other site 272563004926 G4 box; other site 272563004927 G5 box; other site 272563004928 Nucleoside recognition; Region: Gate; pfam07670 272563004929 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272563004930 Nucleoside recognition; Region: Gate; pfam07670 272563004931 FeoA domain; Region: FeoA; cl00838 272563004932 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563004933 Coenzyme A binding pocket [chemical binding]; other site 272563004934 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 272563004935 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 272563004936 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272563004937 active site 272563004938 HIGH motif; other site 272563004939 dimer interface [polypeptide binding]; other site 272563004940 KMSKS motif; other site 272563004941 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 272563004942 RNA binding surface [nucleotide binding]; other site 272563004943 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272563004944 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272563004945 NodB motif; other site 272563004946 active site 272563004947 catalytic site [active] 272563004948 Zn binding site [ion binding]; other site 272563004949 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272563004950 EamA-like transporter family; Region: EamA; pfam00892 272563004951 EamA-like transporter family; Region: EamA; pfam00892 272563004952 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 272563004953 iron binding site [ion binding]; other site 272563004954 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 272563004955 Rubrerythrin [Energy production and conversion]; Region: COG1592 272563004956 diiron binding motif [ion binding]; other site 272563004957 Domain of unknown function (DUF362); Region: DUF362; cl19822 272563004958 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 272563004959 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 272563004960 dihydroorotase; Validated; Region: pyrC; PRK09357 272563004961 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 272563004962 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 272563004963 active site 272563004964 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563004965 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563004966 FtsX-like permease family; Region: FtsX; pfam02687 272563004967 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563004968 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563004969 Walker A/P-loop; other site 272563004970 ATP binding site [chemical binding]; other site 272563004971 Q-loop/lid; other site 272563004972 ABC transporter signature motif; other site 272563004973 Walker B; other site 272563004974 D-loop; other site 272563004975 H-loop/switch region; other site 272563004976 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 272563004977 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 272563004978 HlyD family secretion protein; Region: HlyD_3; pfam13437 272563004979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563004980 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 272563004981 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 272563004982 ATP binding site [chemical binding]; other site 272563004983 Mg2+ binding site [ion binding]; other site 272563004984 G-X-G motif; other site 272563004985 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563004986 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 272563004987 active site 272563004988 phosphorylation site [posttranslational modification] 272563004989 intermolecular recognition site; other site 272563004990 dimerization interface [polypeptide binding]; other site 272563004991 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 272563004992 DNA binding site [nucleotide binding] 272563004993 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563004994 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563004995 Walker A/P-loop; other site 272563004996 ATP binding site [chemical binding]; other site 272563004997 Q-loop/lid; other site 272563004998 ABC transporter signature motif; other site 272563004999 Walker B; other site 272563005000 D-loop; other site 272563005001 H-loop/switch region; other site 272563005002 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563005003 FtsX-like permease family; Region: FtsX; pfam02687 272563005004 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 272563005005 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 272563005006 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 272563005007 active site residue [active] 272563005008 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 272563005009 active site residue [active] 272563005010 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 272563005011 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 272563005012 FAD binding pocket [chemical binding]; other site 272563005013 FAD binding motif [chemical binding]; other site 272563005014 phosphate binding motif [ion binding]; other site 272563005015 beta-alpha-beta structure motif; other site 272563005016 NAD binding pocket [chemical binding]; other site 272563005017 Iron coordination center [ion binding]; other site 272563005018 putative oxidoreductase; Provisional; Region: PRK12831 272563005019 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 272563005020 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563005021 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563005022 Cache domain; Region: Cache_1; pfam02743 272563005023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563005024 metal binding site [ion binding]; metal-binding site 272563005025 active site 272563005026 I-site; other site 272563005027 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 272563005028 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563005029 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563005030 Walker A/P-loop; other site 272563005031 ATP binding site [chemical binding]; other site 272563005032 Q-loop/lid; other site 272563005033 ABC transporter signature motif; other site 272563005034 Walker B; other site 272563005035 D-loop; other site 272563005036 H-loop/switch region; other site 272563005037 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563005038 FtsX-like permease family; Region: FtsX; pfam02687 272563005039 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 272563005040 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563005041 Fic family protein [Function unknown]; Region: COG3177 272563005042 Fic/DOC family; Region: Fic; pfam02661 272563005043 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272563005044 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 272563005045 Haemolysin-III related; Region: HlyIII; cl03831 272563005046 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 272563005047 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 272563005048 motif 1; other site 272563005049 dimer interface [polypeptide binding]; other site 272563005050 active site 272563005051 motif 2; other site 272563005052 motif 3; other site 272563005053 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 272563005054 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 272563005055 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 272563005056 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 272563005057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563005058 homodimer interface [polypeptide binding]; other site 272563005059 catalytic residue [active] 272563005060 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 272563005061 putative active site pocket [active] 272563005062 4-fold oligomerization interface [polypeptide binding]; other site 272563005063 metal binding residues [ion binding]; metal-binding site 272563005064 3-fold/trimer interface [polypeptide binding]; other site 272563005065 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 272563005066 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 272563005067 putative active site [active] 272563005068 oxyanion strand; other site 272563005069 catalytic triad [active] 272563005070 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 272563005071 catalytic residues [active] 272563005072 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 272563005073 substrate binding site [chemical binding]; other site 272563005074 glutamase interaction surface [polypeptide binding]; other site 272563005075 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 272563005076 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 272563005077 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 272563005078 metal binding site [ion binding]; metal-binding site 272563005079 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 272563005080 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 272563005081 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272563005082 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272563005083 NodB motif; other site 272563005084 active site 272563005085 catalytic site [active] 272563005086 Zn binding site [ion binding]; other site 272563005087 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 272563005088 SurA N-terminal domain; Region: SurA_N_3; cl07813 272563005089 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 272563005090 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 272563005091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563005092 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 272563005093 DNA binding residues [nucleotide binding] 272563005094 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 272563005095 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 272563005096 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 272563005097 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 272563005098 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 272563005099 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 272563005100 XdhC Rossmann domain; Region: XdhC_C; pfam13478 272563005101 Protein of unknown function DUF45; Region: DUF45; pfam01863 272563005102 ACT domain; Region: ACT_5; pfam13710 272563005103 ketol-acid reductoisomerase; Provisional; Region: PRK05479 272563005104 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 272563005105 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 272563005106 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 272563005107 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272563005108 PYR/PP interface [polypeptide binding]; other site 272563005109 dimer interface [polypeptide binding]; other site 272563005110 TPP binding site [chemical binding]; other site 272563005111 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 272563005112 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 272563005113 TPP-binding site [chemical binding]; other site 272563005114 dimer interface [polypeptide binding]; other site 272563005115 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 272563005116 dimanganese center [ion binding]; other site 272563005117 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 272563005118 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 272563005119 catalytic residues [active] 272563005120 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 272563005121 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563005122 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; cl17220 272563005123 putative DNA binding site [nucleotide binding]; other site 272563005124 putative Zn2+ binding site [ion binding]; other site 272563005125 Evidence 7 : Gene remnant 272563005126 Transposase IS200 like; Region: Y1_Tnp; cl00848 272563005127 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563005128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563005129 Probable transposase; Region: OrfB_IS605; pfam01385 272563005130 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563005131 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563005132 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 272563005133 non-specific DNA binding site [nucleotide binding]; other site 272563005134 salt bridge; other site 272563005135 sequence-specific DNA binding site [nucleotide binding]; other site 272563005136 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272563005137 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563005138 Coenzyme A binding pocket [chemical binding]; other site 272563005139 Domain of unknown function (DUF348); Region: DUF348; pfam03990 272563005140 G5 domain; Region: G5; pfam07501 272563005141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 272563005142 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_like_4; cd04501 272563005143 active site 272563005144 catalytic triad [active] 272563005145 oxyanion hole [active] 272563005146 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 272563005147 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 272563005148 active site 272563005149 substrate binding site [chemical binding]; other site 272563005150 metal binding site [ion binding]; metal-binding site 272563005151 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 272563005152 PAS fold; Region: PAS_4; pfam08448 272563005153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563005154 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 272563005155 dimer interface [polypeptide binding]; other site 272563005156 phosphorylation site [posttranslational modification] 272563005157 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 272563005158 ATP binding site [chemical binding]; other site 272563005159 Mg2+ binding site [ion binding]; other site 272563005160 G-X-G motif; other site 272563005161 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 272563005162 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 272563005163 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272563005164 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 272563005165 histidinol dehydrogenase; Region: hisD; TIGR00069 272563005166 NAD binding site [chemical binding]; other site 272563005167 dimerization interface [polypeptide binding]; other site 272563005168 product binding site; other site 272563005169 substrate binding site [chemical binding]; other site 272563005170 zinc binding site [ion binding]; other site 272563005171 catalytic residues [active] 272563005172 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563005173 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272563005174 Mor transcription activator family; Region: Mor; cl02360 272563005175 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563005176 nucleotide binding site [chemical binding]; other site 272563005177 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563005178 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272563005179 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563005180 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563005181 nucleotide binding site [chemical binding]; other site 272563005182 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272563005183 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 272563005184 Walker A/P-loop; other site 272563005185 ATP binding site [chemical binding]; other site 272563005186 Q-loop/lid; other site 272563005187 ABC transporter signature motif; other site 272563005188 Walker B; other site 272563005189 D-loop; other site 272563005190 H-loop/switch region; other site 272563005191 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 272563005192 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 272563005193 TM-ABC transporter signature motif; other site 272563005194 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 272563005195 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 272563005196 ligand binding site [chemical binding]; other site 272563005197 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272563005198 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563005199 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 272563005200 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 272563005201 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563005202 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 272563005203 potassium-transporting ATPase subunit C; Provisional; Region: PRK13995 272563005204 cysteine synthase; Region: PLN02565 272563005205 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 272563005206 dimer interface [polypeptide binding]; other site 272563005207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563005208 catalytic residue [active] 272563005209 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 272563005210 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 272563005211 trimer interface [polypeptide binding]; other site 272563005212 active site 272563005213 substrate binding site [chemical binding]; other site 272563005214 CoA binding site [chemical binding]; other site 272563005215 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 272563005216 methionine aminopeptidase; Provisional; Region: PRK12318 272563005217 SEC-C motif; Region: SEC-C; pfam02810 272563005218 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 272563005219 active site 272563005220 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 272563005221 GIY-YIG motif/motif A; other site 272563005222 putative active site [active] 272563005223 putative metal binding site [ion binding]; other site 272563005224 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 272563005225 substrate binding site [chemical binding]; other site 272563005226 dimer interface [polypeptide binding]; other site 272563005227 ATP binding site [chemical binding]; other site 272563005228 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 272563005229 substrate binding site [chemical binding]; other site 272563005230 multimerization interface [polypeptide binding]; other site 272563005231 ATP binding site [chemical binding]; other site 272563005232 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 272563005233 thiamine phosphate binding site [chemical binding]; other site 272563005234 active site 272563005235 pyrophosphate binding site [ion binding]; other site 272563005236 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 272563005237 active site 272563005238 P-loop; other site 272563005239 phosphorylation site [posttranslational modification] 272563005240 ABC-2 type transporter; Region: ABC2_membrane; cl17235 272563005241 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272563005242 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563005243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563005244 Walker A/P-loop; other site 272563005245 ATP binding site [chemical binding]; other site 272563005246 Q-loop/lid; other site 272563005247 ABC transporter signature motif; other site 272563005248 Walker B; other site 272563005249 D-loop; other site 272563005250 H-loop/switch region; other site 272563005251 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563005252 Predicted transcriptional regulators [Transcription]; Region: COG1725 272563005253 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563005254 DNA-binding site [nucleotide binding]; DNA binding site 272563005255 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272563005256 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563005257 Walker A/P-loop; other site 272563005258 ATP binding site [chemical binding]; other site 272563005259 Q-loop/lid; other site 272563005260 ABC transporter signature motif; other site 272563005261 Walker B; other site 272563005262 D-loop; other site 272563005263 H-loop/switch region; other site 272563005264 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 272563005265 Amidohydrolase; Region: Amidohydro_5; pfam13594 272563005266 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 272563005267 active site 272563005268 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 272563005269 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272563005270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563005271 Walker A/P-loop; other site 272563005272 ATP binding site [chemical binding]; other site 272563005273 Q-loop/lid; other site 272563005274 ABC transporter signature motif; other site 272563005275 Walker B; other site 272563005276 D-loop; other site 272563005277 H-loop/switch region; other site 272563005278 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 272563005279 Acyltransferase family; Region: Acyl_transf_3; cl19154 272563005280 CAAX protease self-immunity; Region: Abi; pfam02517 272563005281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563005282 metal binding site [ion binding]; metal-binding site 272563005283 active site 272563005284 I-site; other site 272563005285 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 272563005286 Predicted transcriptional regulators [Transcription]; Region: COG1725 272563005287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563005288 DNA-binding site [nucleotide binding]; DNA binding site 272563005289 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272563005290 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563005291 Walker A/P-loop; other site 272563005292 ATP binding site [chemical binding]; other site 272563005293 Q-loop/lid; other site 272563005294 ABC transporter signature motif; other site 272563005295 Walker B; other site 272563005296 D-loop; other site 272563005297 H-loop/switch region; other site 272563005298 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 272563005299 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563005300 putative substrate translocation pore; other site 272563005301 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272563005302 Predicted membrane protein [Function unknown]; Region: COG3212 272563005303 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 272563005304 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 272563005305 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272563005306 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563005307 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272563005308 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 272563005309 iron binding site [ion binding]; other site 272563005310 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 272563005311 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563005312 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563005313 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 272563005314 active site 272563005315 phosphorylation site [posttranslational modification] 272563005316 intermolecular recognition site; other site 272563005317 dimerization interface [polypeptide binding]; other site 272563005318 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 272563005319 DNA binding site [nucleotide binding] 272563005320 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563005321 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 272563005322 dimer interface [polypeptide binding]; other site 272563005323 phosphorylation site [posttranslational modification] 272563005324 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 272563005325 ATP binding site [chemical binding]; other site 272563005326 Mg2+ binding site [ion binding]; other site 272563005327 G-X-G motif; other site 272563005328 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 272563005329 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272563005330 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 272563005331 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 272563005332 Acyltransferase family; Region: Acyl_transf_3; pfam01757 272563005333 alanine racemase; Reviewed; Region: alr; PRK00053 272563005334 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, VanT and similar proteins; Region: PLPDE_III_VanT; cd06825 272563005335 active site 272563005336 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272563005337 dimer interface [polypeptide binding]; other site 272563005338 substrate binding site [chemical binding]; other site 272563005339 catalytic residues [active] 272563005340 Uncharacterized conserved protein [Function unknown]; Region: COG0398 272563005341 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272563005342 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272563005343 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272563005344 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272563005345 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 272563005346 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 272563005347 active site 272563005348 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 272563005349 Ligand Binding Site [chemical binding]; other site 272563005350 Molecular Tunnel; other site 272563005351 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 272563005352 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272563005353 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 272563005354 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272563005355 putative metal binding site [ion binding]; other site 272563005356 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272563005357 putative metal binding site [ion binding]; other site 272563005358 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272563005359 putative metal binding site [ion binding]; other site 272563005360 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 272563005361 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272563005362 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563005363 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272563005364 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272563005365 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272563005366 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 272563005367 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 272563005368 C-C_Bond_Lyase of the TIM-Barrel fold; Region: C-C_Bond_Lyase; pfam15617 272563005369 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563005370 active site 272563005371 TRSP domain C terminus to PRTase_2; Region: TRSP; pfam12500 272563005372 Phosphoribosyl transferase (PRTase); Region: PRTase_1; pfam11202 272563005373 PELOTA RNA binding domain; Region: PELOTA_1; pfam15608 272563005374 sucrose-phosphate phosphatase subfamily; Region: SPP-subfamily; TIGR01482 272563005375 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563005376 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272563005377 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 272563005378 non-specific DNA binding site [nucleotide binding]; other site 272563005379 salt bridge; other site 272563005380 sequence-specific DNA binding site [nucleotide binding]; other site 272563005381 Cupin domain; Region: Cupin_2; pfam07883 272563005382 Predicted integral membrane protein [Function unknown]; Region: COG5505 272563005383 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 272563005384 active site 272563005385 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 272563005386 ABC-ATPase subunit interface; other site 272563005387 dimer interface [polypeptide binding]; other site 272563005388 putative PBP binding regions; other site 272563005389 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 272563005390 ABC-ATPase subunit interface; other site 272563005391 dimer interface [polypeptide binding]; other site 272563005392 putative PBP binding regions; other site 272563005393 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 272563005394 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272563005395 Walker A/P-loop; other site 272563005396 ATP binding site [chemical binding]; other site 272563005397 Q-loop/lid; other site 272563005398 ABC transporter signature motif; other site 272563005399 Walker B; other site 272563005400 D-loop; other site 272563005401 H-loop/switch region; other site 272563005402 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272563005403 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 272563005404 putative ligand binding residues [chemical binding]; other site 272563005405 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 272563005406 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272563005407 nucleotidyl binding site; other site 272563005408 metal binding site [ion binding]; metal-binding site 272563005409 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 272563005410 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272563005411 putative metal binding site [ion binding]; other site 272563005412 NLPA lipoprotein; Region: Lipoprotein_9; cl19159 272563005413 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 272563005414 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 272563005415 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 272563005416 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272563005417 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 272563005418 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 272563005419 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 272563005420 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 272563005421 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 272563005422 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272563005423 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 272563005424 tetramer interface [polypeptide binding]; other site 272563005425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563005426 catalytic residue [active] 272563005427 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 272563005428 tetramer interface [polypeptide binding]; other site 272563005429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563005430 catalytic residue [active] 272563005431 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272563005432 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563005433 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 272563005434 motif II; other site 272563005435 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272563005436 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 272563005437 Transposase IS200 like; Region: Y1_Tnp; cl00848 272563005438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563005439 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563005440 Probable transposase; Region: OrfB_IS605; pfam01385 272563005441 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563005442 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 272563005443 Protein of unknown function; Region: DUF3658; pfam12395 272563005444 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 272563005445 guanine deaminase; Region: guan_deamin; TIGR02967 272563005446 active site 272563005447 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272563005448 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 272563005449 non-specific DNA binding site [nucleotide binding]; other site 272563005450 salt bridge; other site 272563005451 sequence-specific DNA binding site [nucleotide binding]; other site 272563005452 Cupin domain; Region: Cupin_2; cl17218 272563005453 cysteine synthase; Region: PLN02565 272563005454 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 272563005455 dimer interface [polypeptide binding]; other site 272563005456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563005457 catalytic residue [active] 272563005458 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 272563005459 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 272563005460 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 272563005461 putative active site [active] 272563005462 catalytic site [active] 272563005463 putative metal binding site [ion binding]; other site 272563005464 maltose O-acetyltransferase; Provisional; Region: PRK10092 272563005465 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 272563005466 active site 272563005467 substrate binding site [chemical binding]; other site 272563005468 trimer interface [polypeptide binding]; other site 272563005469 CoA binding site [chemical binding]; other site 272563005470 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563005471 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 272563005472 Walker A/P-loop; other site 272563005473 ATP binding site [chemical binding]; other site 272563005474 Q-loop/lid; other site 272563005475 ABC transporter signature motif; other site 272563005476 Walker B; other site 272563005477 D-loop; other site 272563005478 H-loop/switch region; other site 272563005479 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563005480 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563005481 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 272563005482 active site 272563005483 phosphorylation site [posttranslational modification] 272563005484 intermolecular recognition site; other site 272563005485 dimerization interface [polypeptide binding]; other site 272563005486 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 272563005487 DNA binding site [nucleotide binding] 272563005488 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563005489 HAMP domain; Region: HAMP; pfam00672 272563005490 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 272563005491 dimer interface [polypeptide binding]; other site 272563005492 phosphorylation site [posttranslational modification] 272563005493 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 272563005494 ATP binding site [chemical binding]; other site 272563005495 Mg2+ binding site [ion binding]; other site 272563005496 G-X-G motif; other site 272563005497 TraX protein; Region: TraX; cl05434 272563005498 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563005499 Predicted transcriptional regulators [Transcription]; Region: COG1733 272563005500 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 272563005501 putative substrate binding pocket [chemical binding]; other site 272563005502 AC domain interface; other site 272563005503 catalytic triad [active] 272563005504 AB domain interface; other site 272563005505 interchain disulfide; other site 272563005506 Protein of unknown function (DUF979); Region: DUF979; pfam06166 272563005507 Protein of unknown function (DUF969); Region: DUF969; pfam06149 272563005508 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 272563005509 FMN-binding domain; Region: FMN_bind; cl01081 272563005510 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563005511 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563005512 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 272563005513 active site 272563005514 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 272563005515 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 272563005516 A new structural DNA glycosylase; Region: AlkD_like; cd06561 272563005517 active site 272563005518 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 272563005519 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563005520 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 272563005521 active site 272563005522 phosphorylation site [posttranslational modification] 272563005523 intermolecular recognition site; other site 272563005524 dimerization interface [polypeptide binding]; other site 272563005525 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 272563005526 DNA binding site [nucleotide binding] 272563005527 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563005528 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 272563005529 dimer interface [polypeptide binding]; other site 272563005530 phosphorylation site [posttranslational modification] 272563005531 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 272563005532 ATP binding site [chemical binding]; other site 272563005533 Mg2+ binding site [ion binding]; other site 272563005534 G-X-G motif; other site 272563005535 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 272563005536 catalytic residues [active] 272563005537 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272563005538 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563005539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563005540 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 272563005541 dimerization interface [polypeptide binding]; other site 272563005542 putative DNA binding site [nucleotide binding]; other site 272563005543 putative Zn2+ binding site [ion binding]; other site 272563005544 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272563005545 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 272563005546 Citrate transporter; Region: CitMHS; pfam03600 272563005547 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 272563005548 transmembrane helices; other site 272563005549 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272563005550 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 272563005551 homopentamer interface [polypeptide binding]; other site 272563005552 active site 272563005553 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 272563005554 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 272563005555 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 272563005556 dimerization interface [polypeptide binding]; other site 272563005557 active site 272563005558 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 272563005559 Lumazine binding domain; Region: Lum_binding; pfam00677 272563005560 Lumazine binding domain; Region: Lum_binding; pfam00677 272563005561 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 272563005562 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 272563005563 catalytic motif [active] 272563005564 Zn binding site [ion binding]; other site 272563005565 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 272563005566 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 272563005567 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 272563005568 ATP binding site [chemical binding]; other site 272563005569 putative Mg++ binding site [ion binding]; other site 272563005570 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 272563005571 nucleotide binding region [chemical binding]; other site 272563005572 ATP-binding site [chemical binding]; other site 272563005573 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 272563005574 HRDC domain; Region: HRDC; pfam00570 272563005575 HRDC domain; Region: HRDC; pfam00570 272563005576 Helix-turn-helix domain; Region: HTH_40; pfam14493 272563005577 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 272563005578 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 272563005579 thiS-thiF/thiG interaction site; other site 272563005580 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 272563005581 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 272563005582 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 272563005583 ATP binding site [chemical binding]; other site 272563005584 substrate interface [chemical binding]; other site 272563005585 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 272563005586 ThiS interaction site; other site 272563005587 putative active site [active] 272563005588 tetramer interface [polypeptide binding]; other site 272563005589 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 272563005590 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 272563005591 FeS/SAM binding site; other site 272563005592 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 272563005593 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 272563005594 thiamine phosphate binding site [chemical binding]; other site 272563005595 active site 272563005596 pyrophosphate binding site [ion binding]; other site 272563005597 Predicted membrane protein [Function unknown]; Region: COG1288 272563005598 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272563005599 synthetase active site [active] 272563005600 NTP binding site [chemical binding]; other site 272563005601 metal binding site [ion binding]; metal-binding site 272563005602 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 272563005603 GTP binding site; other site 272563005604 CoA binding domain; Region: CoA_binding_2; pfam13380 272563005605 hypothetical protein; Provisional; Region: PRK00967 272563005606 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 272563005607 MPT binding site; other site 272563005608 trimer interface [polypeptide binding]; other site 272563005609 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 272563005610 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 272563005611 FeS/SAM binding site; other site 272563005612 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272563005613 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 272563005614 trimer interface [polypeptide binding]; other site 272563005615 dimer interface [polypeptide binding]; other site 272563005616 putative active site [active] 272563005617 MOSC domain; Region: MOSC; pfam03473 272563005618 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 272563005619 Na binding site [ion binding]; other site 272563005620 Protein of unknown function (DUF917); Region: DUF917; pfam06032 272563005621 Evidence 7 : Gene remnant; PubMedId : 19781061 272563005622 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563005623 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563005624 Probable transposase; Region: OrfB_IS605; pfam01385 272563005625 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563005626 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 272563005627 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272563005628 putative acyl-acceptor binding pocket; other site 272563005629 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 272563005630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563005631 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563005632 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272563005633 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 272563005634 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272563005635 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272563005636 PhoU domain; Region: PhoU; pfam01895 272563005637 PhoU domain; Region: PhoU; pfam01895 272563005638 Evidence 7 : Gene remnant; PubMedId : 8516313,8451183 272563005639 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 272563005640 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 272563005641 Walker A motif; other site 272563005642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563005643 Coenzyme A binding pocket [chemical binding]; other site 272563005644 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 272563005645 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 272563005646 B12 binding site [chemical binding]; other site 272563005647 Uroporphyrinogen decarboxylase (URO-D); Region: URO-D; pfam01208 272563005648 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 272563005649 HAD-hyrolase-like; Region: Hydrolase_like; cl19142 272563005650 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 272563005651 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 272563005652 motif II; other site 272563005653 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272563005654 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 272563005655 non-specific DNA binding site [nucleotide binding]; other site 272563005656 salt bridge; other site 272563005657 sequence-specific DNA binding site [nucleotide binding]; other site 272563005658 Cupin domain; Region: Cupin_2; pfam07883 272563005659 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 272563005660 fructuronate transporter; Provisional; Region: PRK10034; cl15264 272563005661 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563005662 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 272563005663 substrate binding pocket [chemical binding]; other site 272563005664 membrane-bound complex binding site; other site 272563005665 hinge residues; other site 272563005666 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272563005667 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 272563005668 dimer interface [polypeptide binding]; other site 272563005669 phosphorylation site [posttranslational modification] 272563005670 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 272563005671 ATP binding site [chemical binding]; other site 272563005672 Mg2+ binding site [ion binding]; other site 272563005673 G-X-G motif; other site 272563005674 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272563005675 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 272563005676 active site 272563005677 phosphorylation site [posttranslational modification] 272563005678 intermolecular recognition site; other site 272563005679 dimerization interface [polypeptide binding]; other site 272563005680 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 272563005681 Walker A motif; other site 272563005682 ATP binding site [chemical binding]; other site 272563005683 Walker B motif; other site 272563005684 arginine finger; other site 272563005685 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272563005686 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 272563005687 Evidence 7 : Gene remnant; PubMedId : 8529639 272563005688 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563005689 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 272563005690 active site 272563005691 phosphorylation site [posttranslational modification] 272563005692 intermolecular recognition site; other site 272563005693 dimerization interface [polypeptide binding]; other site 272563005694 LytTr DNA-binding domain; Region: LytTR; smart00850 272563005695 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272563005696 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 272563005697 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 272563005698 ATP binding site [chemical binding]; other site 272563005699 Mg2+ binding site [ion binding]; other site 272563005700 G-X-G motif; other site 272563005701 HemX; Region: HemX; cl19375 272563005702 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 272563005703 active site 272563005704 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 272563005705 Sodium/glutamate symporter; Region: Glt_symporter; cl19414 272563005706 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 272563005707 active site 272563005708 purine riboside binding site [chemical binding]; other site 272563005709 EcsC protein family; Region: EcsC; pfam12787 272563005710 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 272563005711 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 272563005712 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272563005713 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 272563005714 active site 272563005715 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563005716 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563005717 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563005718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563005719 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563005720 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563005721 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563005722 Walker A/P-loop; other site 272563005723 ATP binding site [chemical binding]; other site 272563005724 Q-loop/lid; other site 272563005725 ABC transporter signature motif; other site 272563005726 Walker B; other site 272563005727 D-loop; other site 272563005728 H-loop/switch region; other site 272563005729 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272563005730 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 272563005731 non-specific DNA binding site [nucleotide binding]; other site 272563005732 salt bridge; other site 272563005733 sequence-specific DNA binding site [nucleotide binding]; other site 272563005734 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 272563005735 active site 272563005736 catalytic residues [active] 272563005737 metal binding site [ion binding]; metal-binding site 272563005738 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 272563005739 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 272563005740 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272563005741 FeS/SAM binding site; other site 272563005742 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 272563005743 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 272563005744 S-adenosylmethionine binding site [chemical binding]; other site 272563005745 Evidence 7 : Gene remnant 272563005746 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 272563005747 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 272563005748 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 272563005749 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 272563005750 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 272563005751 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 272563005752 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 272563005753 B3/4 domain; Region: B3_4; cl19243 272563005754 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 272563005755 dimer interface [polypeptide binding]; other site 272563005756 ADP-ribose binding site [chemical binding]; other site 272563005757 active site 272563005758 nudix motif; other site 272563005759 metal binding site [ion binding]; metal-binding site 272563005760 Domain of unknown function (DUF4624); Region: DUF4624; pfam15417 272563005761 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 272563005762 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 272563005763 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272563005764 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272563005765 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 272563005766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 272563005767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 272563005768 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 272563005769 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 272563005770 DNA binding site [nucleotide binding] 272563005771 active site 272563005772 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 272563005773 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 272563005774 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563005775 substrate binding pocket [chemical binding]; other site 272563005776 membrane-bound complex binding site; other site 272563005777 hinge residues; other site 272563005778 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 272563005779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563005780 dimer interface [polypeptide binding]; other site 272563005781 conserved gate region; other site 272563005782 putative PBP binding loops; other site 272563005783 ABC-ATPase subunit interface; other site 272563005784 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272563005785 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563005786 Walker A/P-loop; other site 272563005787 ATP binding site [chemical binding]; other site 272563005788 Q-loop/lid; other site 272563005789 ABC transporter signature motif; other site 272563005790 Walker B; other site 272563005791 D-loop; other site 272563005792 H-loop/switch region; other site 272563005793 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 272563005794 putative ArsC-like catalytic residues; other site 272563005795 putative TRX-like catalytic residues [active] 272563005796 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 272563005797 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 272563005798 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 272563005799 Ligand Binding Site [chemical binding]; other site 272563005800 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 272563005801 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 272563005802 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 272563005803 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563005804 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 272563005805 active site 272563005806 phosphorylation site [posttranslational modification] 272563005807 intermolecular recognition site; other site 272563005808 dimerization interface [polypeptide binding]; other site 272563005809 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 272563005810 DNA binding site [nucleotide binding] 272563005811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563005812 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 272563005813 dimerization interface [polypeptide binding]; other site 272563005814 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 272563005815 dimer interface [polypeptide binding]; other site 272563005816 phosphorylation site [posttranslational modification] 272563005817 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 272563005818 ATP binding site [chemical binding]; other site 272563005819 Mg2+ binding site [ion binding]; other site 272563005820 G-X-G motif; other site 272563005821 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 272563005822 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 272563005823 dimerization interface 3.5A [polypeptide binding]; other site 272563005824 active site 272563005825 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 272563005826 ANP binding site [chemical binding]; other site 272563005827 Substrate Binding Site II [chemical binding]; other site 272563005828 Substrate Binding Site I [chemical binding]; other site 272563005829 NlpC/p60-like transpeptidase; Region: Transpep_BrtH; pfam14399 272563005830 putative active site [active] 272563005831 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563005832 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 272563005833 DNA binding residues [nucleotide binding] 272563005834 dimer interface [polypeptide binding]; other site 272563005835 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 272563005836 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 272563005837 Predicted membrane protein [Function unknown]; Region: COG2323 272563005838 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 272563005839 active site 272563005840 catalytic site [active] 272563005841 substrate binding site [chemical binding]; other site 272563005842 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272563005843 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 272563005844 NAD binding site [chemical binding]; other site 272563005845 homodimer interface [polypeptide binding]; other site 272563005846 active site 272563005847 putative substrate binding site [chemical binding]; other site 272563005848 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 272563005849 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 272563005850 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272563005851 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 272563005852 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 272563005853 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563005854 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 272563005855 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563005856 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563005857 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 272563005858 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 272563005859 active site residue [active] 272563005860 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563005861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563005862 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272563005863 dimerization interface [polypeptide binding]; other site 272563005864 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272563005865 putative metal binding site [ion binding]; other site 272563005866 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272563005867 putative metal binding site [ion binding]; other site 272563005868 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272563005869 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563005870 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563005871 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 272563005872 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563005873 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563005874 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563005875 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563005876 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272563005877 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272563005878 DNA binding site [nucleotide binding] 272563005879 domain linker motif; other site 272563005880 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 272563005881 dimerization interface [polypeptide binding]; other site 272563005882 ligand binding site [chemical binding]; other site 272563005883 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 272563005884 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 272563005885 substrate binding [chemical binding]; other site 272563005886 active site 272563005887 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 272563005888 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 272563005889 putative substrate binding site [chemical binding]; other site 272563005890 putative ATP binding site [chemical binding]; other site 272563005891 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563005892 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 272563005893 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 272563005894 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272563005895 catalytic residue [active] 272563005896 Evidence 7 : Gene remnant ; This CDS contains an in-frame TGA stop codon. 272563005897 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563005898 Evidence 7 : Gene remnant 272563005899 Evidence 7 : Gene remnant; PubMedId : 18689481,18790863 272563005900 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 272563005901 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 272563005902 catalytic core [active] 272563005903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563005904 flavoprotein, HI0933 family; Region: TIGR00275 272563005905 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 272563005906 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563005907 cytidylate kinase; Provisional; Region: cmk; PRK00023 272563005908 AAA domain; Region: AAA_17; cl19128 272563005909 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 272563005910 CMP-binding site; other site 272563005911 The sites determining sugar specificity; other site 272563005912 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272563005913 putative acyl-acceptor binding pocket; other site 272563005914 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 272563005915 Fe-S cluster binding site [ion binding]; other site 272563005916 substrate binding site [chemical binding]; other site 272563005917 catalytic site [active] 272563005918 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 272563005919 Evidence 7 : Gene remnant; PubMedId : 19781061 272563005920 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563005921 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563005922 Probable transposase; Region: OrfB_IS605; pfam01385 272563005923 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563005924 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 272563005925 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 272563005926 catalytic triad [active] 272563005927 Protein of unknown function (DUF328); Region: DUF328; pfam03883 272563005928 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272563005929 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 272563005930 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563005931 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272563005932 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 272563005933 motif II; other site 272563005934 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272563005935 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 272563005936 homodimer interface [polypeptide binding]; other site 272563005937 substrate-cofactor binding pocket; other site 272563005938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563005939 catalytic residue [active] 272563005940 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 272563005941 proposed active site lysine [active] 272563005942 conserved cys residue [active] 272563005943 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; cl17220 272563005944 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563005945 putative DNA binding site [nucleotide binding]; other site 272563005946 putative Zn2+ binding site [ion binding]; other site 272563005947 FtsH Extracellular; Region: FtsH_ext; pfam06480 272563005948 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272563005949 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 272563005950 Walker A motif; other site 272563005951 ATP binding site [chemical binding]; other site 272563005952 Walker B motif; other site 272563005953 arginine finger; other site 272563005954 Peptidase family M41; Region: Peptidase_M41; pfam01434 272563005955 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 272563005956 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 272563005957 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 272563005958 Ligand Binding Site [chemical binding]; other site 272563005959 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 272563005960 GAF domain; Region: GAF_3; pfam13492 272563005961 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 272563005962 dimer interface [polypeptide binding]; other site 272563005963 phosphorylation site [posttranslational modification] 272563005964 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 272563005965 ATP binding site [chemical binding]; other site 272563005966 Mg2+ binding site [ion binding]; other site 272563005967 G-X-G motif; other site 272563005968 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563005969 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 272563005970 active site 272563005971 phosphorylation site [posttranslational modification] 272563005972 intermolecular recognition site; other site 272563005973 dimerization interface [polypeptide binding]; other site 272563005974 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 272563005975 DNA binding site [nucleotide binding] 272563005976 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 272563005977 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 272563005978 oligomer interface [polypeptide binding]; other site 272563005979 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 272563005980 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 272563005981 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272563005982 active site 272563005983 dimer interface [polypeptide binding]; other site 272563005984 metal binding site [ion binding]; metal-binding site 272563005985 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 272563005986 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 272563005987 hinge; other site 272563005988 active site 272563005989 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272563005990 Tetramer interface [polypeptide binding]; other site 272563005991 active site 272563005992 FMN-binding site [chemical binding]; other site 272563005993 Chorismate mutase type II; Region: CM_2; smart00830 272563005994 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 272563005995 Prephenate dehydratase; Region: PDT; pfam00800 272563005996 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 272563005997 putative L-Phe binding site [chemical binding]; other site 272563005998 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 272563005999 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272563006000 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272563006001 shikimate binding site; other site 272563006002 NAD(P) binding site [chemical binding]; other site 272563006003 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 272563006004 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 272563006005 ADP binding site [chemical binding]; other site 272563006006 magnesium binding site [ion binding]; other site 272563006007 putative shikimate binding site; other site 272563006008 prephenate dehydrogenase; Validated; Region: PRK08507 272563006009 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 272563006010 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563006011 metal binding site [ion binding]; metal-binding site 272563006012 active site 272563006013 I-site; other site 272563006014 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 272563006015 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 272563006016 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 272563006017 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 272563006018 putative active site [active] 272563006019 heme pocket [chemical binding]; other site 272563006020 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 272563006021 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 272563006022 putative active site [active] 272563006023 heme pocket [chemical binding]; other site 272563006024 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 272563006025 putative active site [active] 272563006026 heme pocket [chemical binding]; other site 272563006027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563006028 metal binding site [ion binding]; metal-binding site 272563006029 active site 272563006030 I-site; other site 272563006031 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 272563006032 putative active site [active] 272563006033 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272563006034 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS is disrupted by the insertion of a conjugative transposon. 272563006035 Evidence 7 : Gene remnant 272563006036 Uncharacterized conserved protein [Function unknown]; Region: COG4283 272563006037 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 272563006038 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 272563006039 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 272563006040 Walker A motif; other site 272563006041 ATP binding site [chemical binding]; other site 272563006042 Walker B motif; other site 272563006043 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563006044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 272563006045 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 272563006046 generic binding surface I; other site 272563006047 generic binding surface II; other site 272563006048 Maff2 family; Region: Maff2; pfam12750 272563006049 phosphoenolpyruvate synthase; Validated; Region: PRK06464 272563006050 PrgI family protein; Region: PrgI; pfam12666 272563006051 AAA-like domain; Region: AAA_10; pfam12846 272563006052 Domain of unknown function DUF87; Region: DUF87; cl19135 272563006053 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563006054 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 272563006055 DNA topoisomerase III; Provisional; Region: PRK07726 272563006056 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 272563006057 active site 272563006058 putative interdomain interaction site [polypeptide binding]; other site 272563006059 putative metal-binding site [ion binding]; other site 272563006060 putative nucleotide binding site [chemical binding]; other site 272563006061 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 272563006062 domain I; other site 272563006063 DNA binding groove [nucleotide binding] 272563006064 phosphate binding site [ion binding]; other site 272563006065 domain II; other site 272563006066 domain III; other site 272563006067 nucleotide binding site [chemical binding]; other site 272563006068 catalytic site [active] 272563006069 domain IV; other site 272563006070 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 272563006071 Protein of unknown function (DUF1016); Region: DUF1016; cl19557 272563006072 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 272563006073 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 272563006074 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 272563006075 Methyltransferase domain; Region: Methyltransf_26; pfam13659 272563006076 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 272563006077 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272563006078 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 272563006079 helicase superfamily c-terminal domain; Region: HELICc; smart00490 272563006080 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563006081 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 272563006082 non-specific DNA binding site [nucleotide binding]; other site 272563006083 salt bridge; other site 272563006084 sequence-specific DNA binding site [nucleotide binding]; other site 272563006085 AAA ATPase domain; Region: AAA_15; pfam13175 272563006086 AAA domain; Region: AAA_23; pfam13476 272563006087 Walker A/P-loop; other site 272563006088 ATP binding site [chemical binding]; other site 272563006089 AAA domain; Region: AAA_21; pfam13304 272563006090 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 272563006091 putative active site [active] 272563006092 putative metal-binding site [ion binding]; other site 272563006093 Viral (Superfamily 1) RNA helicase; Region: Viral_helicase1; pfam01443 272563006094 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 272563006095 FOG: WD40-like repeat [Function unknown]; Region: COG1520 272563006096 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl19391 272563006097 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 272563006098 catalytic residues [active] 272563006099 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272563006100 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 272563006101 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272563006102 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563006103 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 272563006104 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563006105 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563006106 FtsX-like permease family; Region: FtsX; pfam02687 272563006107 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563006108 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563006109 Walker A/P-loop; other site 272563006110 ATP binding site [chemical binding]; other site 272563006111 Q-loop/lid; other site 272563006112 ABC transporter signature motif; other site 272563006113 Walker B; other site 272563006114 D-loop; other site 272563006115 H-loop/switch region; other site 272563006116 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563006117 FtsX-like permease family; Region: FtsX; pfam02687 272563006118 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563006119 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 272563006120 active site 272563006121 phosphorylation site [posttranslational modification] 272563006122 intermolecular recognition site; other site 272563006123 dimerization interface [polypeptide binding]; other site 272563006124 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 272563006125 DNA binding site [nucleotide binding] 272563006126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563006127 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 272563006128 dimerization interface [polypeptide binding]; other site 272563006129 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 272563006130 dimer interface [polypeptide binding]; other site 272563006131 phosphorylation site [posttranslational modification] 272563006132 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 272563006133 ATP binding site [chemical binding]; other site 272563006134 Mg2+ binding site [ion binding]; other site 272563006135 G-X-G motif; other site 272563006136 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563006137 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS lacks the C-terminus proximal 10 amino acids. It also lacks a stop codon and hence it's fused to the C-terminal part of the disrupted CDS, CD1844. 272563006138 Cupin domain; Region: Cupin_2; pfam07883 272563006139 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS is disrupted by a laterally aquired genomic island. 272563006140 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272563006141 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272563006142 catalytic residues [active] 272563006143 catalytic nucleophile [active] 272563006144 Recombinase; Region: Recombinase; pfam07508 272563006145 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272563006146 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563006147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563006148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 272563006149 Domain of unknown function (DUF303); Region: DUF303; pfam03629 272563006150 Transcriptional regulator PadR-like family; Region: PadR; cl17335 272563006151 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 272563006152 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563006153 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 272563006154 DNA binding residues [nucleotide binding] 272563006155 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563006156 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 272563006157 Walker A/P-loop; other site 272563006158 ATP binding site [chemical binding]; other site 272563006159 Q-loop/lid; other site 272563006160 ABC transporter signature motif; other site 272563006161 Walker B; other site 272563006162 D-loop; other site 272563006163 H-loop/switch region; other site 272563006164 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563006165 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272563006166 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272563006167 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 272563006168 S-adenosylmethionine binding site [chemical binding]; other site 272563006169 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 272563006170 putative deacylase active site [active] 272563006171 YtxH-like protein; Region: YtxH; pfam12732 272563006172 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 272563006173 active site 272563006174 metal binding site [ion binding]; metal-binding site 272563006175 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 272563006176 catalytic motif [active] 272563006177 Zn binding site [ion binding]; other site 272563006178 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563006179 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 272563006180 non-specific DNA binding site [nucleotide binding]; other site 272563006181 salt bridge; other site 272563006182 sequence-specific DNA binding site [nucleotide binding]; other site 272563006183 Evidence 7 : Gene remnant 272563006184 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272563006185 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272563006186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563006187 dimer interface [polypeptide binding]; other site 272563006188 conserved gate region; other site 272563006189 putative PBP binding loops; other site 272563006190 ABC-ATPase subunit interface; other site 272563006191 Evidence 7 : Gene remnant; PubMedId : 16109880,9401024, 96404792 ; This CDS is disrupted by the insertion of a laterally acquired genomic island. 272563006192 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272563006193 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272563006194 catalytic residues [active] 272563006195 catalytic nucleophile [active] 272563006196 Recombinase; Region: Recombinase; pfam07508 272563006197 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272563006198 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 272563006199 putative active site [active] 272563006200 metal binding site [ion binding]; metal-binding site 272563006201 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 272563006202 putative hexamer interface [polypeptide binding]; other site 272563006203 putative hexagonal pore; other site 272563006204 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 272563006205 G1 box; other site 272563006206 GTP/Mg2+ binding site [chemical binding]; other site 272563006207 G2 box; other site 272563006208 Switch I region; other site 272563006209 G3 box; other site 272563006210 Switch II region; other site 272563006211 G4 box; other site 272563006212 G5 box; other site 272563006213 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 272563006214 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 272563006215 active site 272563006216 phosphorylation site [posttranslational modification] 272563006217 intermolecular recognition site; other site 272563006218 dimerization interface [polypeptide binding]; other site 272563006219 ANTAR domain; Region: ANTAR; pfam03861 272563006220 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 272563006221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272563006222 Histidine kinase; Region: HisKA_2; pfam07568 272563006223 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 272563006224 ATP binding site [chemical binding]; other site 272563006225 Mg2+ binding site [ion binding]; other site 272563006226 G-X-G motif; other site 272563006227 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 272563006228 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 272563006229 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 272563006230 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 272563006231 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 272563006232 putative hexamer interface [polypeptide binding]; other site 272563006233 putative hexagonal pore; other site 272563006234 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 272563006235 putative hexamer interface [polypeptide binding]; other site 272563006236 putative hexagonal pore; other site 272563006237 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 272563006238 Hexamer interface [polypeptide binding]; other site 272563006239 Hexagonal pore residue; other site 272563006240 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 272563006241 putative catalytic cysteine [active] 272563006242 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 272563006243 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 272563006244 Hexamer interface [polypeptide binding]; other site 272563006245 Putative hexagonal pore residue; other site 272563006246 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 272563006247 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 272563006248 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272563006249 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272563006250 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 272563006251 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 272563006252 Hexamer/Pentamer interface [polypeptide binding]; other site 272563006253 central pore; other site 272563006254 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 272563006255 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 272563006256 putative hexamer interface [polypeptide binding]; other site 272563006257 putative hexagonal pore; other site 272563006258 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 272563006259 putative hexamer interface [polypeptide binding]; other site 272563006260 putative hexagonal pore; other site 272563006261 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 272563006262 Cupin domain; Region: Cupin_2; cl17218 272563006263 Evidence 7 : Gene remnant; PubMedId : 8516313,8451183 272563006264 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 272563006265 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272563006266 ligand binding site [chemical binding]; other site 272563006267 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 272563006268 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563006269 LexA repressor; Validated; Region: PRK00215 272563006270 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 272563006271 putative DNA binding site [nucleotide binding]; other site 272563006272 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 272563006273 Catalytic site [active] 272563006274 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 272563006275 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 272563006276 active site 272563006277 DNA binding site [nucleotide binding] 272563006278 Int/Topo IB signature motif; other site 272563006279 Uncharacterized conserved protein [Function unknown]; Region: COG3603 272563006280 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like; cd04868 272563006281 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 272563006282 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 272563006283 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 272563006284 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 272563006285 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272563006286 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272563006287 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 272563006288 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272563006289 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 272563006290 carboxyltransferase (CT) interaction site; other site 272563006291 biotinylation site [posttranslational modification]; other site 272563006292 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 272563006293 S-adenosylmethionine binding site [chemical binding]; other site 272563006294 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272563006295 Evidence 7 : Gene remnant; PubMedId : 19781061 272563006296 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_23; cd09011 272563006297 Helix-turn-helix domain; Region: HTH_18; pfam12833 272563006298 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563006299 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563006300 Walker A/P-loop; other site 272563006301 ATP binding site [chemical binding]; other site 272563006302 Q-loop/lid; other site 272563006303 ABC transporter signature motif; other site 272563006304 Walker B; other site 272563006305 D-loop; other site 272563006306 H-loop/switch region; other site 272563006307 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563006308 FtsX-like permease family; Region: FtsX; pfam02687 272563006309 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563006310 FtsX-like permease family; Region: FtsX; pfam02687 272563006311 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563006312 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 272563006313 dimer interface [polypeptide binding]; other site 272563006314 phosphorylation site [posttranslational modification] 272563006315 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 272563006316 ATP binding site [chemical binding]; other site 272563006317 Mg2+ binding site [ion binding]; other site 272563006318 G-X-G motif; other site 272563006319 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563006320 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272563006321 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 272563006322 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272563006323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563006324 Coenzyme A binding pocket [chemical binding]; other site 272563006325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563006326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563006327 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 272563006328 dimerization interface [polypeptide binding]; other site 272563006329 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 272563006330 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563006331 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563006332 FtsX-like permease family; Region: FtsX; pfam02687 272563006333 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272563006334 FtsX-like permease family; Region: FtsX; pfam02687 272563006335 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563006336 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563006337 Walker A/P-loop; other site 272563006338 ATP binding site [chemical binding]; other site 272563006339 Q-loop/lid; other site 272563006340 ABC transporter signature motif; other site 272563006341 Walker B; other site 272563006342 D-loop; other site 272563006343 H-loop/switch region; other site 272563006344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563006345 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 272563006346 dimer interface [polypeptide binding]; other site 272563006347 phosphorylation site [posttranslational modification] 272563006348 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 272563006349 ATP binding site [chemical binding]; other site 272563006350 Mg2+ binding site [ion binding]; other site 272563006351 G-X-G motif; other site 272563006352 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563006353 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 272563006354 active site 272563006355 phosphorylation site [posttranslational modification] 272563006356 intermolecular recognition site; other site 272563006357 dimerization interface [polypeptide binding]; other site 272563006358 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 272563006359 DNA binding site [nucleotide binding] 272563006360 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 272563006361 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 272563006362 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563006363 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563006364 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 272563006365 active site 272563006366 phosphorylation site [posttranslational modification] 272563006367 intermolecular recognition site; other site 272563006368 dimerization interface [polypeptide binding]; other site 272563006369 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 272563006370 DNA binding site [nucleotide binding] 272563006371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563006372 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 272563006373 dimer interface [polypeptide binding]; other site 272563006374 phosphorylation site [posttranslational modification] 272563006375 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 272563006376 ATP binding site [chemical binding]; other site 272563006377 Mg2+ binding site [ion binding]; other site 272563006378 G-X-G motif; other site 272563006379 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563006380 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563006381 Walker A/P-loop; other site 272563006382 ATP binding site [chemical binding]; other site 272563006383 Q-loop/lid; other site 272563006384 ABC transporter signature motif; other site 272563006385 Walker B; other site 272563006386 D-loop; other site 272563006387 H-loop/switch region; other site 272563006388 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272563006389 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563006390 FtsX-like permease family; Region: FtsX; pfam02687 272563006391 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563006392 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563006393 FtsX-like permease family; Region: FtsX; pfam02687 272563006394 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272563006395 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 272563006396 S-adenosylmethionine binding site [chemical binding]; other site 272563006397 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563006398 WHG domain; Region: WHG; pfam13305 272563006399 Sulfate transporter family; Region: Sulfate_transp; cl19250 272563006400 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 272563006401 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272563006402 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 272563006403 Protein of unknown function (DUF554); Region: DUF554; pfam04474 272563006404 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 272563006405 putative deacylase active site [active] 272563006406 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 272563006407 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 272563006408 hypothetical protein; Provisional; Region: PRK07205 272563006409 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 272563006410 active site 272563006411 metal binding site [ion binding]; metal-binding site 272563006412 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; cl18945 272563006413 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563006414 catalytic residue [active] 272563006415 bacterial Hfq-like; Region: Hfq; cd01716 272563006416 hexamer interface [polypeptide binding]; other site 272563006417 Sm1 motif; other site 272563006418 RNA binding site [nucleotide binding]; other site 272563006419 Sm2 motif; other site 272563006420 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 272563006421 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 272563006422 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 272563006423 ATP binding site [chemical binding]; other site 272563006424 Mg2+ binding site [ion binding]; other site 272563006425 G-X-G motif; other site 272563006426 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 272563006427 ATP binding site [chemical binding]; other site 272563006428 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 272563006429 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272563006430 MutS domain I; Region: MutS_I; pfam01624 272563006431 MutS domain II; Region: MutS_II; pfam05188 272563006432 MutS domain III; Region: MutS_III; pfam05192 272563006433 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 272563006434 Walker A/P-loop; other site 272563006435 ATP binding site [chemical binding]; other site 272563006436 Q-loop/lid; other site 272563006437 ABC transporter signature motif; other site 272563006438 Walker B; other site 272563006439 D-loop; other site 272563006440 H-loop/switch region; other site 272563006441 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272563006442 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 272563006443 Walker A/P-loop; other site 272563006444 ATP binding site [chemical binding]; other site 272563006445 Q-loop/lid; other site 272563006446 ABC transporter signature motif; other site 272563006447 Walker B; other site 272563006448 D-loop; other site 272563006449 H-loop/switch region; other site 272563006450 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272563006451 NMT1/THI5 like; Region: NMT1; pfam09084 272563006452 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272563006453 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563006454 dimer interface [polypeptide binding]; other site 272563006455 conserved gate region; other site 272563006456 putative PBP binding loops; other site 272563006457 ABC-ATPase subunit interface; other site 272563006458 Domain of unknown function DUF77; Region: DUF77; pfam01910 272563006459 Predicted transcriptional regulators [Transcription]; Region: COG1733 272563006460 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS appears to have two frameshift mutations. 272563006461 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 272563006462 putative active site [active] 272563006463 putative CoA binding site [chemical binding]; other site 272563006464 nudix motif; other site 272563006465 metal binding site [ion binding]; metal-binding site 272563006466 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 272563006467 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 272563006468 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272563006469 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 272563006470 FeS/SAM binding site; other site 272563006471 TRAM domain; Region: TRAM; pfam01938 272563006472 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563006473 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563006474 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563006475 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 272563006476 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563006477 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563006478 Evidence 7 : Gene remnant; PubMedId : 10679470,14568532, 12881514, 7876197 ; This CDS contains an in-frame stop codon. 272563006479 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 272563006480 DNA-binding site [nucleotide binding]; DNA binding site 272563006481 RNA-binding motif; other site 272563006482 Evidence 7 : Gene remnant 272563006483 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 272563006484 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 272563006485 Predicted integral membrane protein [Function unknown]; Region: COG5658 272563006486 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 272563006487 SdpI/YhfL protein family; Region: SdpI; pfam13630 272563006488 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 272563006489 dimerization interface [polypeptide binding]; other site 272563006490 putative DNA binding site [nucleotide binding]; other site 272563006491 putative Zn2+ binding site [ion binding]; other site 272563006492 hypothetical protein; Provisional; Region: PRK10621 272563006493 Cupin domain; Region: Cupin_2; cl17218 272563006494 Sensory domain found in PocR; Region: PocR; pfam10114 272563006495 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563006496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563006497 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 272563006498 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563006499 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563006500 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563006501 Evidence 7 : Gene remnant 272563006502 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272563006503 flavodoxin, short chain; Region: flav_short; TIGR01753 272563006504 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 272563006505 Subtilase family; Region: Peptidase_S8; pfam00082 272563006506 active site 272563006507 catalytic residues [active] 272563006508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272563006509 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 272563006510 non-specific DNA binding site [nucleotide binding]; other site 272563006511 salt bridge; other site 272563006512 sequence-specific DNA binding site [nucleotide binding]; other site 272563006513 Evidence 7 : Gene remnant 272563006514 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563006515 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563006516 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563006517 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272563006518 putative DNA binding site [nucleotide binding]; other site 272563006519 putative Zn2+ binding site [ion binding]; other site 272563006520 Evidence 7 : Gene remnant 272563006521 Evidence 7 : Gene remnant 272563006522 Evidence 7 : Gene remnant 272563006523 Evidence 7 : Gene remnant 272563006524 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 272563006525 S-adenosylmethionine binding site [chemical binding]; other site 272563006526 Evidence 7 : Gene remnant 272563006527 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 272563006528 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 272563006529 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 272563006530 P-loop; other site 272563006531 Magnesium ion binding site [ion binding]; other site 272563006532 Evidence 7 : Gene remnant 272563006533 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 272563006534 S-adenosylmethionine binding site [chemical binding]; other site 272563006535 23S rRNA methylase leader peptide (ErmC); Region: ErmC; pfam06308 272563006536 Evidence 7 : Gene remnant 272563006537 Evidence 7 : Gene remnant 272563006538 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 272563006539 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563006540 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 272563006541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563006542 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563006543 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 272563006544 VanZ like family; Region: VanZ; pfam04892 272563006545 L-aspartate oxidase; Provisional; Region: PRK06175 272563006546 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 272563006547 non-specific DNA binding site [nucleotide binding]; other site 272563006548 salt bridge; other site 272563006549 sequence-specific DNA binding site [nucleotide binding]; other site 272563006550 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 272563006551 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272563006552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563006553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563006554 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 272563006555 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563006556 putative substrate translocation pore; other site 272563006557 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272563006558 Clp amino terminal domain; Region: Clp_N; pfam02861 272563006559 Clp amino terminal domain; Region: Clp_N; pfam02861 272563006560 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 272563006561 Walker A motif; other site 272563006562 ATP binding site [chemical binding]; other site 272563006563 Walker B motif; other site 272563006564 arginine finger; other site 272563006565 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 272563006566 Walker A motif; other site 272563006567 ATP binding site [chemical binding]; other site 272563006568 Walker B motif; other site 272563006569 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 272563006570 Firmicute plasmid replication protein (RepL); Region: RepL; pfam05732 272563006571 Predicted transcriptional regulators [Transcription]; Region: COG1725 272563006572 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563006573 DNA-binding site [nucleotide binding]; DNA binding site 272563006574 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563006575 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563006576 Walker A/P-loop; other site 272563006577 ATP binding site [chemical binding]; other site 272563006578 Q-loop/lid; other site 272563006579 ABC transporter signature motif; other site 272563006580 Walker B; other site 272563006581 D-loop; other site 272563006582 H-loop/switch region; other site 272563006583 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 272563006584 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272563006585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563006586 Coenzyme A binding pocket [chemical binding]; other site 272563006587 allantoate amidohydrolase; Reviewed; Region: PRK09290 272563006588 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 272563006589 active site 272563006590 metal binding site [ion binding]; metal-binding site 272563006591 dimer interface [polypeptide binding]; other site 272563006592 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272563006593 ornithine carbamoyltransferase; Validated; Region: PRK02102 272563006594 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272563006595 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 272563006596 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 272563006597 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 272563006598 inhibitor-cofactor binding pocket; inhibition site 272563006599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563006600 catalytic residue [active] 272563006601 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 272563006602 feedback inhibition sensing region; other site 272563006603 homohexameric interface [polypeptide binding]; other site 272563006604 nucleotide binding site [chemical binding]; other site 272563006605 N-acetyl-L-glutamate binding site [chemical binding]; other site 272563006606 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 272563006607 heterotetramer interface [polypeptide binding]; other site 272563006608 active site pocket [active] 272563006609 cleavage site 272563006610 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 272563006611 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 272563006612 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 272563006613 Domain of unknown function DUF20; Region: UPF0118; cl00465 272563006614 Amidinotransferase; Region: Amidinotransf; cl19186 272563006615 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272563006616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563006617 Coenzyme A binding pocket [chemical binding]; other site 272563006618 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563006619 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563006620 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 272563006621 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 272563006622 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563006623 DNA binding residues [nucleotide binding] 272563006624 dimer interface [polypeptide binding]; other site 272563006625 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272563006626 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563006627 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 272563006628 non-specific DNA binding site [nucleotide binding]; other site 272563006629 salt bridge; other site 272563006630 sequence-specific DNA binding site [nucleotide binding]; other site 272563006631 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563006632 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 272563006633 WHG domain; Region: WHG; pfam13305 272563006634 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272563006635 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 272563006636 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 272563006637 salt bridge; other site 272563006638 non-specific DNA binding site [nucleotide binding]; other site 272563006639 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563006640 sequence-specific DNA binding site [nucleotide binding]; other site 272563006641 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563006642 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 272563006643 active site 272563006644 phosphorylation site [posttranslational modification] 272563006645 intermolecular recognition site; other site 272563006646 dimerization interface [polypeptide binding]; other site 272563006647 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 272563006648 DNA binding site [nucleotide binding] 272563006649 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563006650 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563006651 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 272563006652 putative active site [active] 272563006653 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 272563006654 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 272563006655 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272563006656 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 272563006657 RNA binding surface [nucleotide binding]; other site 272563006658 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 272563006659 active site 272563006660 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272563006661 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 272563006662 diaminopimelate decarboxylase; Region: lysA; TIGR01048 272563006663 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 272563006664 active site 272563006665 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272563006666 substrate binding site [chemical binding]; other site 272563006667 catalytic residues [active] 272563006668 dimer interface [polypeptide binding]; other site 272563006669 aspartate kinase; Reviewed; Region: PRK06635 272563006670 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 272563006671 putative nucleotide binding site [chemical binding]; other site 272563006672 putative catalytic residues [active] 272563006673 putative Mg ion binding site [ion binding]; other site 272563006674 putative aspartate binding site [chemical binding]; other site 272563006675 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 272563006676 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 272563006677 putative allosteric regulatory residue; other site 272563006678 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 272563006679 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 272563006680 active site 272563006681 HIGH motif; other site 272563006682 KMSKS motif; other site 272563006683 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 272563006684 putative lipid kinase; Reviewed; Region: PRK13059 272563006685 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 272563006686 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 272563006687 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 272563006688 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563006689 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 272563006690 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 272563006691 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 272563006692 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 272563006693 Int/Topo IB signature motif; other site 272563006694 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 272563006695 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563006696 ABC transporter; Region: ABC_tran_2; pfam12848 272563006697 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563006698 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 272563006699 putative MPT binding site; other site 272563006700 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 272563006701 Ligand binding site; other site 272563006702 metal-binding site 272563006703 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 272563006704 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563006705 Probable transposase; Region: OrfB_IS605; pfam01385 272563006706 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 272563006707 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 272563006708 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 272563006709 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272563006710 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 272563006711 FAD binding domain; Region: FAD_binding_4; cl19922 272563006712 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 272563006713 Sulfate transporter family; Region: Sulfate_transp; cl19250 272563006714 xanthine permease; Region: pbuX; TIGR03173 272563006715 Golgi complex component 7 (COG7); Region: COG7; pfam10191 272563006716 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 272563006717 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 272563006718 phosphate binding site [ion binding]; other site 272563006719 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 272563006720 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 272563006721 active site 272563006722 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 272563006723 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 272563006724 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272563006725 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 272563006726 FAD binding domain; Region: FAD_binding_4; cl19922 272563006727 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 272563006728 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272563006729 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 272563006730 catalytic loop [active] 272563006731 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 272563006732 iron binding site [ion binding]; other site 272563006733 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272563006734 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 272563006735 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272563006736 active site 272563006737 putative substrate binding pocket [chemical binding]; other site 272563006738 phenylhydantoinase; Validated; Region: PRK08323 272563006739 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 272563006740 tetramer interface [polypeptide binding]; other site 272563006741 active site 272563006742 peptidase; Reviewed; Region: PRK13004 272563006743 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 272563006744 putative metal binding site [ion binding]; other site 272563006745 putative dimer interface [polypeptide binding]; other site 272563006746 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 272563006747 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563006748 catalytic residue [active] 272563006749 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563006750 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 272563006751 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 272563006752 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272563006753 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272563006754 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 272563006755 catalytic loop [active] 272563006756 iron binding site [ion binding]; other site 272563006757 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272563006758 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 272563006759 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272563006760 active site 272563006761 putative substrate binding pocket [chemical binding]; other site 272563006762 Sulfate transporter family; Region: Sulfate_transp; cl19250 272563006763 xanthine permease; Region: pbuX; TIGR03173 272563006764 Sulfate transporter family; Region: Sulfate_transp; cl19250 272563006765 xanthine permease; Region: pbuX; TIGR03173 272563006766 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 272563006767 Walker A motif; other site 272563006768 ATP binding site [chemical binding]; other site 272563006769 Walker B motif; other site 272563006770 arginine finger; other site 272563006771 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 272563006772 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; cl18944 272563006773 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 272563006774 Predicted transcriptional regulator [Transcription]; Region: COG2378 272563006775 HTH domain; Region: HTH_11; pfam08279 272563006776 WYL domain; Region: WYL; pfam13280 272563006777 QueT transporter; Region: QueT; pfam06177 272563006778 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 272563006779 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 272563006780 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272563006781 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272563006782 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 272563006783 catalytic loop [active] 272563006784 iron binding site [ion binding]; other site 272563006785 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272563006786 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 272563006787 FAD binding domain; Region: FAD_binding_4; cl19922 272563006788 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 272563006789 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 272563006790 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 272563006791 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272563006792 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563006793 Walker A/P-loop; other site 272563006794 ATP binding site [chemical binding]; other site 272563006795 Q-loop/lid; other site 272563006796 ABC transporter signature motif; other site 272563006797 Walker B; other site 272563006798 D-loop; other site 272563006799 H-loop/switch region; other site 272563006800 helicase 45; Provisional; Region: PTZ00424 272563006801 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 272563006802 ATP binding site [chemical binding]; other site 272563006803 putative Mg++ binding site [ion binding]; other site 272563006804 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 272563006805 nucleotide binding region [chemical binding]; other site 272563006806 ATP-binding site [chemical binding]; other site 272563006807 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 272563006808 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563006809 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 272563006810 anion transporter; Region: dass; TIGR00785 272563006811 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272563006812 transmembrane helices; other site 272563006813 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 272563006814 active site 272563006815 intersubunit interactions; other site 272563006816 catalytic residue [active] 272563006817 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272563006818 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 272563006819 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 272563006820 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 272563006821 dimer interface [polypeptide binding]; other site 272563006822 phosphorylation site [posttranslational modification] 272563006823 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 272563006824 ATP binding site [chemical binding]; other site 272563006825 G-X-G motif; other site 272563006826 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563006827 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 272563006828 active site 272563006829 phosphorylation site [posttranslational modification] 272563006830 intermolecular recognition site; other site 272563006831 dimerization interface [polypeptide binding]; other site 272563006832 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 272563006833 DNA binding site [nucleotide binding] 272563006834 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 272563006835 metal-binding site [ion binding] 272563006836 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272563006837 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 272563006838 metal-binding site [ion binding] 272563006839 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563006840 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 272563006841 motif II; other site 272563006842 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 272563006843 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 272563006844 G1 box; other site 272563006845 putative GEF interaction site [polypeptide binding]; other site 272563006846 GTP/Mg2+ binding site [chemical binding]; other site 272563006847 Switch I region; other site 272563006848 G2 box; other site 272563006849 G3 box; other site 272563006850 Switch II region; other site 272563006851 G4 box; other site 272563006852 G5 box; other site 272563006853 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 272563006854 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 272563006855 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272563006856 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563006857 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563006858 threonine synthase; Validated; Region: PRK09225 272563006859 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 272563006860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563006861 catalytic residue [active] 272563006862 homoserine kinase; Provisional; Region: PRK01212 272563006863 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 272563006864 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272563006865 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 272563006866 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 272563006867 FMN binding site [chemical binding]; other site 272563006868 substrate binding site [chemical binding]; other site 272563006869 putative catalytic residue [active] 272563006870 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 272563006871 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 272563006872 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 272563006873 Cl binding site [ion binding]; other site 272563006874 oligomer interface [polypeptide binding]; other site 272563006875 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272563006876 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 272563006877 binding surface 272563006878 TPR motif; other site 272563006879 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 272563006880 binding surface 272563006881 TPR motif; other site 272563006882 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 272563006883 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 272563006884 binding surface 272563006885 TPR motif; other site 272563006886 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 272563006887 binding surface 272563006888 TPR motif; other site 272563006889 Predicted permeases [General function prediction only]; Region: COG0679 272563006890 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272563006891 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563006892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 272563006893 Coenzyme A binding pocket [chemical binding]; other site 272563006894 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 272563006895 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 272563006896 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 272563006897 RIP metalloprotease RseP; Region: TIGR00054 272563006898 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 272563006899 active site 272563006900 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 272563006901 protein binding site [polypeptide binding]; other site 272563006902 putative substrate binding region [chemical binding]; other site 272563006903 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272563006904 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272563006905 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272563006906 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 272563006907 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 272563006908 non-specific DNA binding site [nucleotide binding]; other site 272563006909 salt bridge; other site 272563006910 sequence-specific DNA binding site [nucleotide binding]; other site 272563006911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563006912 metal binding site [ion binding]; metal-binding site 272563006913 active site 272563006914 I-site; other site 272563006915 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 272563006916 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 272563006917 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 272563006918 active site 272563006919 dimer interface [polypeptide binding]; other site 272563006920 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 272563006921 hinge region; other site 272563006922 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 272563006923 putative nucleotide binding site [chemical binding]; other site 272563006924 uridine monophosphate binding site [chemical binding]; other site 272563006925 homohexameric interface [polypeptide binding]; other site 272563006926 elongation factor Ts; Provisional; Region: tsf; PRK09377 272563006927 UBA/TS-N domain; Region: UBA; pfam00627 272563006928 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 272563006929 rRNA interaction site [nucleotide binding]; other site 272563006930 S8 interaction site; other site 272563006931 putative laminin-1 binding site; other site 272563006932 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272563006933 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 272563006934 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 272563006935 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 272563006936 Ion channel; Region: Ion_trans_2; pfam07885 272563006937 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563006938 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 272563006939 non-specific DNA binding site [nucleotide binding]; other site 272563006940 salt bridge; other site 272563006941 sequence-specific DNA binding site [nucleotide binding]; other site 272563006942 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 272563006943 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 272563006944 Domain of unknown function DUF; Region: DUF204; pfam02659 272563006945 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 272563006946 MutS domain III; Region: MutS_III; pfam05192 272563006947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563006948 Walker A/P-loop; other site 272563006949 ATP binding site [chemical binding]; other site 272563006950 Q-loop/lid; other site 272563006951 ABC transporter signature motif; other site 272563006952 Walker B; other site 272563006953 D-loop; other site 272563006954 H-loop/switch region; other site 272563006955 hypothetical protein; Reviewed; Region: PRK09588 272563006956 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 272563006957 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272563006958 active site 272563006959 ATP binding site [chemical binding]; other site 272563006960 substrate binding site [chemical binding]; other site 272563006961 activation loop (A-loop); other site 272563006962 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 272563006963 VanW like protein; Region: VanW; pfam04294 272563006964 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272563006965 putative catalytic site [active] 272563006966 putative metal binding site [ion binding]; other site 272563006967 putative phosphate binding site [ion binding]; other site 272563006968 Protein of unknown function (DUF819); Region: DUF819; cl02317 272563006969 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 272563006970 putative oligomer interface [polypeptide binding]; other site 272563006971 putative active site [active] 272563006972 metal binding site [ion binding]; metal-binding site 272563006973 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 272563006974 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 272563006975 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 272563006976 G1 box; other site 272563006977 GTP/Mg2+ binding site [chemical binding]; other site 272563006978 Switch I region; other site 272563006979 G2 box; other site 272563006980 Switch II region; other site 272563006981 G3 box; other site 272563006982 G4 box; other site 272563006983 G5 box; other site 272563006984 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 272563006985 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 272563006986 FeS/SAM binding site; other site 272563006987 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 272563006988 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 272563006989 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 272563006990 FeS/SAM binding site; other site 272563006991 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 272563006992 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 272563006993 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 272563006994 inhibitor-cofactor binding pocket; inhibition site 272563006995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563006996 catalytic residue [active] 272563006997 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 272563006998 VanZ like family; Region: VanZ; pfam04892 272563006999 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272563007000 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563007001 Coenzyme A binding pocket [chemical binding]; other site 272563007002 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 272563007003 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 272563007004 DHHA1 domain; Region: DHHA1; pfam02272 272563007005 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 272563007006 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563007007 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 272563007008 NAD binding site [chemical binding]; other site 272563007009 dimer interface [polypeptide binding]; other site 272563007010 substrate binding site [chemical binding]; other site 272563007011 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 272563007012 non-specific DNA binding site [nucleotide binding]; other site 272563007013 salt bridge; other site 272563007014 sequence-specific DNA binding site [nucleotide binding]; other site 272563007015 Domain of unknown function (DUF955); Region: DUF955; cl01076 272563007016 methionine sulfoxide reductase A; Provisional; Region: PRK14054 272563007017 methionine sulfoxide reductase B; Provisional; Region: PRK00222 272563007018 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 272563007019 active site 272563007020 nucleophile elbow; other site 272563007021 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 272563007022 cubane metal cluster [ion binding]; other site 272563007023 hybrid metal cluster; other site 272563007024 Ferredoxin [Energy production and conversion]; Region: COG1146 272563007025 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007026 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272563007027 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 272563007028 ligand binding site [chemical binding]; other site 272563007029 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 272563007030 non-specific DNA interactions [nucleotide binding]; other site 272563007031 DNA binding site [nucleotide binding] 272563007032 sequence specific DNA binding site [nucleotide binding]; other site 272563007033 putative cAMP binding site [chemical binding]; other site 272563007034 Evidence 7 : Gene remnant; PubMedId : 1280334,8031825 272563007035 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272563007036 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 272563007037 Walker A/P-loop; other site 272563007038 ATP binding site [chemical binding]; other site 272563007039 Q-loop/lid; other site 272563007040 ABC transporter signature motif; other site 272563007041 Walker B; other site 272563007042 D-loop; other site 272563007043 H-loop/switch region; other site 272563007044 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563007045 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272563007046 metal binding site [ion binding]; metal-binding site 272563007047 dimer interface [polypeptide binding]; other site 272563007048 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 272563007049 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563007050 substrate binding pocket [chemical binding]; other site 272563007051 membrane-bound complex binding site; other site 272563007052 hinge residues; other site 272563007053 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 272563007054 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563007055 dimer interface [polypeptide binding]; other site 272563007056 conserved gate region; other site 272563007057 putative PBP binding loops; other site 272563007058 ABC-ATPase subunit interface; other site 272563007059 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 272563007060 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563007061 dimer interface [polypeptide binding]; other site 272563007062 conserved gate region; other site 272563007063 putative PBP binding loops; other site 272563007064 ABC-ATPase subunit interface; other site 272563007065 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 272563007066 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272563007067 substrate binding pocket [chemical binding]; other site 272563007068 membrane-bound complex binding site; other site 272563007069 hinge residues; other site 272563007070 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 272563007071 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007072 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 272563007073 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 272563007074 molybdopterin cofactor binding site; other site 272563007075 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 272563007076 molybdopterin cofactor binding site; other site 272563007077 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 272563007078 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 272563007079 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 272563007080 ATP binding site [chemical binding]; other site 272563007081 putative Mg++ binding site [ion binding]; other site 272563007082 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 272563007083 nucleotide binding region [chemical binding]; other site 272563007084 ATP-binding site [chemical binding]; other site 272563007085 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563007086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272563007087 Evidence 7 : Gene remnant 272563007088 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272563007089 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 272563007090 ATP binding site [chemical binding]; other site 272563007091 Mg++ binding site [ion binding]; other site 272563007092 motif III; other site 272563007093 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 272563007094 nucleotide binding region [chemical binding]; other site 272563007095 ATP-binding site [chemical binding]; other site 272563007096 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 272563007097 RNA binding site [nucleotide binding]; other site 272563007098 Evidence 7 : Gene remnant 272563007099 Domain of unknown function DUF11; Region: DUF11; cl17728 272563007100 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 272563007101 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 272563007102 maltose phosphorylase; Provisional; Region: PRK13807 272563007103 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 272563007104 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 272563007105 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 272563007106 beta-phosphoglucomutase; Region: bPGM; TIGR01990 272563007107 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 272563007108 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 272563007109 homodimer interface [polypeptide binding]; other site 272563007110 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 272563007111 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 272563007112 active site 272563007113 homodimer interface [polypeptide binding]; other site 272563007114 catalytic site [active] 272563007115 histidinol-phosphatase; Provisional; Region: PRK05588 272563007116 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 272563007117 active site 272563007118 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 272563007119 Evidence 7 : Gene remnant 272563007120 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 272563007121 non-specific DNA interactions [nucleotide binding]; other site 272563007122 DNA binding site [nucleotide binding] 272563007123 sequence specific DNA binding site [nucleotide binding]; other site 272563007124 putative cAMP binding site [chemical binding]; other site 272563007125 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563007126 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563007127 nucleotide binding site [chemical binding]; other site 272563007128 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 272563007129 Ferritin-like domain; Region: Ferritin; pfam00210 272563007130 ferroxidase diiron center [ion binding]; other site 272563007131 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 272563007132 CoA binding domain; Region: CoA_binding_2; pfam13380 272563007133 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 272563007134 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 272563007135 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 272563007136 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 272563007137 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 272563007138 TPP-binding site [chemical binding]; other site 272563007139 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 272563007140 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 272563007141 dimer interface [polypeptide binding]; other site 272563007142 PYR/PP interface [polypeptide binding]; other site 272563007143 TPP binding site [chemical binding]; other site 272563007144 substrate binding site [chemical binding]; other site 272563007145 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272563007146 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007147 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563007148 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 272563007149 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 272563007150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563007151 homodimer interface [polypeptide binding]; other site 272563007152 catalytic residue [active] 272563007153 putative symporter YagG; Provisional; Region: PRK09669; cl15392 272563007154 MFS/sugar transport protein; Region: MFS_2; pfam13347 272563007155 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 272563007156 Na binding site [ion binding]; other site 272563007157 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563007158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563007159 Putative esterase; Region: Esterase; pfam00756 272563007160 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 272563007161 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272563007162 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 272563007163 NAD(P) binding site [chemical binding]; other site 272563007164 catalytic residues [active] 272563007165 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 272563007166 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563007167 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; cl17220 272563007168 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272563007169 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 272563007170 HflX GTPase family; Region: HflX; cd01878 272563007171 G1 box; other site 272563007172 GTP/Mg2+ binding site [chemical binding]; other site 272563007173 Switch I region; other site 272563007174 G2 box; other site 272563007175 G3 box; other site 272563007176 Switch II region; other site 272563007177 G4 box; other site 272563007178 G5 box; other site 272563007179 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563007180 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563007181 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 272563007182 Walker A/P-loop; other site 272563007183 ATP binding site [chemical binding]; other site 272563007184 Q-loop/lid; other site 272563007185 ABC transporter signature motif; other site 272563007186 Walker B; other site 272563007187 D-loop; other site 272563007188 H-loop/switch region; other site 272563007189 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563007190 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563007191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563007192 Walker A/P-loop; other site 272563007193 ATP binding site [chemical binding]; other site 272563007194 Q-loop/lid; other site 272563007195 ABC transporter signature motif; other site 272563007196 Walker B; other site 272563007197 D-loop; other site 272563007198 H-loop/switch region; other site 272563007199 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563007200 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272563007201 putative DNA binding site [nucleotide binding]; other site 272563007202 putative Zn2+ binding site [ion binding]; other site 272563007203 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 272563007204 active site clefts [active] 272563007205 zinc binding site [ion binding]; other site 272563007206 dimer interface [polypeptide binding]; other site 272563007207 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 272563007208 non-specific DNA binding site [nucleotide binding]; other site 272563007209 salt bridge; other site 272563007210 sequence-specific DNA binding site [nucleotide binding]; other site 272563007211 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563007212 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 272563007213 non-specific DNA binding site [nucleotide binding]; other site 272563007214 salt bridge; other site 272563007215 sequence-specific DNA binding site [nucleotide binding]; other site 272563007216 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 272563007217 active site 272563007218 catalytic residue [active] 272563007219 dimer interface [polypeptide binding]; other site 272563007220 Evidence 7 : Gene remnant 272563007221 Evidence 7 : Gene remnant 272563007222 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272563007223 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 272563007224 ligand binding site [chemical binding]; other site 272563007225 flexible hinge region; other site 272563007226 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 272563007227 Evidence 7 : Gene remnant 272563007228 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563007229 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 272563007230 Helix-turn-helix domain; Region: HTH_16; pfam12645 272563007231 Evidence 7 : Gene remnant 272563007232 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 272563007233 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 272563007234 trimer interface [polypeptide binding]; other site 272563007235 active site 272563007236 substrate binding site [chemical binding]; other site 272563007237 CoA binding site [chemical binding]; other site 272563007238 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 272563007239 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272563007240 FeS/SAM binding site; other site 272563007241 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272563007242 Predicted membrane protein [Function unknown]; Region: COG4129 272563007243 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 272563007244 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 272563007245 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 272563007246 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272563007247 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 272563007248 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007249 4Fe-4S binding domain; Region: Fer4; pfam00037 272563007250 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 272563007251 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 272563007252 FAD binding pocket [chemical binding]; other site 272563007253 FAD binding motif [chemical binding]; other site 272563007254 phosphate binding motif [ion binding]; other site 272563007255 beta-alpha-beta structure motif; other site 272563007256 NAD binding pocket [chemical binding]; other site 272563007257 Iron coordination center [ion binding]; other site 272563007258 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 272563007259 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007260 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272563007261 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 272563007262 ligand binding site [chemical binding]; other site 272563007263 flexible hinge region; other site 272563007264 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 272563007265 putative switch regulator; other site 272563007266 non-specific DNA interactions [nucleotide binding]; other site 272563007267 DNA binding site [nucleotide binding] 272563007268 sequence specific DNA binding site [nucleotide binding]; other site 272563007269 putative cAMP binding site [chemical binding]; other site 272563007270 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563007271 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563007272 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 272563007273 putative active site [active] 272563007274 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563007275 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563007276 nucleotide binding site [chemical binding]; other site 272563007277 Domain of unknown function (DUF303); Region: DUF303; pfam03629 272563007278 Domain of unknown function (DUF386); Region: DUF386; cl01047 272563007279 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 272563007280 Na binding site [ion binding]; other site 272563007281 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 272563007282 inhibitor site; inhibition site 272563007283 active site 272563007284 dimer interface [polypeptide binding]; other site 272563007285 catalytic residue [active] 272563007286 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 272563007287 putative active site cavity [active] 272563007288 Double zinc ribbon; Region: DZR; pfam12773 272563007289 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 272563007290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563007291 metal binding site [ion binding]; metal-binding site 272563007292 active site 272563007293 I-site; other site 272563007294 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 272563007295 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 272563007296 putative dimer interface [polypeptide binding]; other site 272563007297 putative anticodon binding site; other site 272563007298 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 272563007299 homodimer interface [polypeptide binding]; other site 272563007300 motif 1; other site 272563007301 motif 2; other site 272563007302 active site 272563007303 motif 3; other site 272563007304 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 272563007305 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 272563007306 active site 272563007307 catalytic triad [active] 272563007308 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 272563007309 active site 272563007310 catalytic triad [active] 272563007311 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 272563007312 active site 272563007313 catalytic triad [active] 272563007314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 272563007315 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563007316 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 272563007317 Walker A motif; other site 272563007318 ATP binding site [chemical binding]; other site 272563007319 Walker B motif; other site 272563007320 arginine finger; other site 272563007321 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272563007322 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 272563007323 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 272563007324 FeS/SAM binding site; other site 272563007325 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 272563007326 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 272563007327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563007328 DNA-binding site [nucleotide binding]; DNA binding site 272563007329 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 272563007330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563007331 homodimer interface [polypeptide binding]; other site 272563007332 catalytic residue [active] 272563007333 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 272563007334 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 272563007335 Cupin domain; Region: Cupin_2; pfam07883 272563007336 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 272563007337 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563007338 putative substrate translocation pore; other site 272563007339 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272563007340 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272563007341 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272563007342 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 272563007343 active site 272563007344 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 272563007345 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 272563007346 putative substrate translocation pore; other site 272563007347 SurA N-terminal domain; Region: SurA_N_3; cl07813 272563007348 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 272563007349 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272563007350 FAD dependent oxidoreductase; Region: DAO; pfam01266 272563007351 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 272563007352 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 272563007353 [2Fe-2S] cluster binding site [ion binding]; other site 272563007354 Evidence 7 : Gene remnant ; This CDS appears to have a frameshift mutation around codon 106. 272563007355 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 272563007356 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 272563007357 active site 272563007358 phosphorylation site [posttranslational modification] 272563007359 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 272563007360 active site 272563007361 P-loop; other site 272563007362 phosphorylation site [posttranslational modification] 272563007363 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 272563007364 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 272563007365 putative substrate binding site [chemical binding]; other site 272563007366 putative ATP binding site [chemical binding]; other site 272563007367 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563007368 HTH domain; Region: HTH_11; pfam08279 272563007369 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563007370 PRD domain; Region: PRD; pfam00874 272563007371 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 272563007372 active site 272563007373 P-loop; other site 272563007374 phosphorylation site [posttranslational modification] 272563007375 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563007376 active site 272563007377 phosphorylation site [posttranslational modification] 272563007378 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 272563007379 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 272563007380 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 272563007381 Domain of unknown function DUF20; Region: UPF0118; cl00465 272563007382 DNA topoisomerase III; Provisional; Region: PRK07726 272563007383 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 272563007384 active site 272563007385 putative interdomain interaction site [polypeptide binding]; other site 272563007386 putative metal-binding site [ion binding]; other site 272563007387 putative nucleotide binding site [chemical binding]; other site 272563007388 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 272563007389 domain I; other site 272563007390 DNA binding groove [nucleotide binding] 272563007391 phosphate binding site [ion binding]; other site 272563007392 domain II; other site 272563007393 domain III; other site 272563007394 nucleotide binding site [chemical binding]; other site 272563007395 catalytic site [active] 272563007396 domain IV; other site 272563007397 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 272563007398 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 272563007399 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272563007400 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 272563007401 intersubunit interface [polypeptide binding]; other site 272563007402 active site 272563007403 Zn2+ binding site [ion binding]; other site 272563007404 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 272563007405 intersubunit interface [polypeptide binding]; other site 272563007406 active site 272563007407 Zn2+ binding site [ion binding]; other site 272563007408 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272563007409 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 272563007410 putative NAD(P) binding site [chemical binding]; other site 272563007411 catalytic Zn binding site [ion binding]; other site 272563007412 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 272563007413 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 272563007414 active site 272563007415 P-loop; other site 272563007416 phosphorylation site [posttranslational modification] 272563007417 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 272563007418 active site 272563007419 phosphorylation site [posttranslational modification] 272563007420 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272563007421 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 272563007422 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563007423 Walker A motif; other site 272563007424 ATP binding site [chemical binding]; other site 272563007425 Walker B motif; other site 272563007426 arginine finger; other site 272563007427 PRD domain; Region: PRD; pfam00874 272563007428 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; cl00025 272563007429 active pocket/dimerization site; other site 272563007430 active site 272563007431 phosphorylation site [posttranslational modification] 272563007432 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563007433 active site 272563007434 phosphorylation site [posttranslational modification] 272563007435 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 272563007436 Evidence 7 : Gene remnant 272563007437 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 272563007438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563007439 DNA-binding site [nucleotide binding]; DNA binding site 272563007440 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 272563007441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563007442 homodimer interface [polypeptide binding]; other site 272563007443 catalytic residue [active] 272563007444 AzlC protein; Region: AzlC; pfam03591 272563007445 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 272563007446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563007447 HAMP domain; Region: HAMP; pfam00672 272563007448 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 272563007449 dimer interface [polypeptide binding]; other site 272563007450 phosphorylation site [posttranslational modification] 272563007451 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 272563007452 ATP binding site [chemical binding]; other site 272563007453 Mg2+ binding site [ion binding]; other site 272563007454 G-X-G motif; other site 272563007455 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563007456 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 272563007457 active site 272563007458 phosphorylation site [posttranslational modification] 272563007459 intermolecular recognition site; other site 272563007460 dimerization interface [polypeptide binding]; other site 272563007461 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 272563007462 DNA binding site [nucleotide binding] 272563007463 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563007464 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563007465 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 272563007466 non-specific DNA binding site [nucleotide binding]; other site 272563007467 salt bridge; other site 272563007468 sequence-specific DNA binding site [nucleotide binding]; other site 272563007469 Evidence 7 : Gene remnant 272563007470 BRO family, N-terminal domain; Region: Bro-N; smart01040 272563007471 Evidence 7 : Gene remnant 272563007472 Short C-terminal domain; Region: SHOCT; pfam09851 272563007473 Evidence 7 : Gene remnant; PubMedId : 15353570,397738 272563007474 Evidence 7 : Gene remnant 272563007475 Evidence 7 : Gene remnant 272563007476 Evidence 7 : Gene remnant 272563007477 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563007478 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 272563007479 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 272563007480 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 272563007481 Evidence 7 : Gene remnant 272563007482 Evidence 7 : Gene remnant 272563007483 Protein of unknown function (DUF3796); Region: DUF3796; pfam12676 272563007484 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 272563007485 non-specific DNA binding site [nucleotide binding]; other site 272563007486 salt bridge; other site 272563007487 sequence-specific DNA binding site [nucleotide binding]; other site 272563007488 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 272563007489 DNA-binding site [nucleotide binding]; DNA binding site 272563007490 RNA-binding motif; other site 272563007491 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 272563007492 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272563007493 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 272563007494 substrate binding pocket [chemical binding]; other site 272563007495 membrane-bound complex binding site; other site 272563007496 hinge residues; other site 272563007497 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272563007498 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563007499 dimer interface [polypeptide binding]; other site 272563007500 conserved gate region; other site 272563007501 putative PBP binding loops; other site 272563007502 ABC-ATPase subunit interface; other site 272563007503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563007504 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 272563007505 Walker A/P-loop; other site 272563007506 ATP binding site [chemical binding]; other site 272563007507 Q-loop/lid; other site 272563007508 ABC transporter signature motif; other site 272563007509 Walker B; other site 272563007510 D-loop; other site 272563007511 H-loop/switch region; other site 272563007512 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 272563007513 Domain of unknown function (DUF364); Region: DUF364; pfam04016 272563007514 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 272563007515 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563007516 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 272563007517 active site 272563007518 phosphorylation site [posttranslational modification] 272563007519 intermolecular recognition site; other site 272563007520 dimerization interface [polypeptide binding]; other site 272563007521 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 272563007522 DNA binding site [nucleotide binding] 272563007523 Polysaccharide biosynthesis C-terminal domain; Region: Polysacc_synt_C; pfam14667 272563007524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563007525 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 272563007526 dimerization interface [polypeptide binding]; other site 272563007527 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 272563007528 dimer interface [polypeptide binding]; other site 272563007529 phosphorylation site [posttranslational modification] 272563007530 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 272563007531 ATP binding site [chemical binding]; other site 272563007532 Mg2+ binding site [ion binding]; other site 272563007533 G-X-G motif; other site 272563007534 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 272563007535 active site 272563007536 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 272563007537 substrate binding site [chemical binding]; other site 272563007538 metal binding site [ion binding]; metal-binding site 272563007539 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 272563007540 substrate binding site [chemical binding]; other site 272563007541 hexamer interface [polypeptide binding]; other site 272563007542 metal binding site [ion binding]; metal-binding site 272563007543 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 272563007544 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 272563007545 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 272563007546 PYR/PP interface [polypeptide binding]; other site 272563007547 dimer interface [polypeptide binding]; other site 272563007548 TPP binding site [chemical binding]; other site 272563007549 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272563007550 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 272563007551 TPP-binding site [chemical binding]; other site 272563007552 dimer interface [polypeptide binding]; other site 272563007553 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272563007554 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 272563007555 putative NAD(P) binding site [chemical binding]; other site 272563007556 catalytic Zn binding site [ion binding]; other site 272563007557 structural Zn binding site [ion binding]; other site 272563007558 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272563007559 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 272563007560 putative NAD(P) binding site [chemical binding]; other site 272563007561 catalytic Zn binding site [ion binding]; other site 272563007562 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 272563007563 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 272563007564 active site 272563007565 P-loop; other site 272563007566 phosphorylation site [posttranslational modification] 272563007567 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 272563007568 active site 272563007569 phosphorylation site [posttranslational modification] 272563007570 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272563007571 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 272563007572 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563007573 Walker A motif; other site 272563007574 ATP binding site [chemical binding]; other site 272563007575 Walker B motif; other site 272563007576 arginine finger; other site 272563007577 PRD domain; Region: PRD; pfam00874 272563007578 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; cl00025 272563007579 active pocket/dimerization site; other site 272563007580 active site 272563007581 phosphorylation site [posttranslational modification] 272563007582 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 272563007583 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 272563007584 active site 272563007585 phosphorylation site [posttranslational modification] 272563007586 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 272563007587 active site 272563007588 intersubunit interactions; other site 272563007589 catalytic residue [active] 272563007590 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563007591 active site 272563007592 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 272563007593 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 272563007594 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 272563007595 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 272563007596 active site 272563007597 phosphorylation site [posttranslational modification] 272563007598 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563007599 HTH domain; Region: HTH_11; cl17392 272563007600 PRD domain; Region: PRD; pfam00874 272563007601 PRD domain; Region: PRD; pfam00874 272563007602 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 272563007603 active site 272563007604 P-loop; other site 272563007605 phosphorylation site [posttranslational modification] 272563007606 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; cl00163 272563007607 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 272563007608 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 272563007609 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 272563007610 active site 272563007611 P-loop; other site 272563007612 phosphorylation site [posttranslational modification] 272563007613 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 272563007614 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 272563007615 active site 272563007616 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 272563007617 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 272563007618 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 272563007619 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272563007620 active site 272563007621 NAD binding site [chemical binding]; other site 272563007622 metal binding site [ion binding]; metal-binding site 272563007623 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 272563007624 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 272563007625 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 272563007626 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 272563007627 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 272563007628 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 272563007629 putative catalytic cysteine [active] 272563007630 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 272563007631 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 272563007632 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 272563007633 Predicted permease [General function prediction only]; Region: COG2985 272563007634 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 272563007635 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 272563007636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563007637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563007638 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 272563007639 dimerization interface [polypeptide binding]; other site 272563007640 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272563007641 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272563007642 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 272563007643 active site 272563007644 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 272563007645 "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 272563007646 dimer interface [polypeptide binding]; other site 272563007647 active site 272563007648 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl19416 272563007649 glycine/sarcosine/betaine reductase complex protein A; Reviewed; Region: PRK13265 272563007650 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 272563007651 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 272563007652 catalytic residues [active] 272563007653 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272563007654 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563007655 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563007656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563007657 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 272563007658 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 272563007659 active site 272563007660 Zn binding site [ion binding]; other site 272563007661 sugar phosphate phosphatase; Provisional; Region: PRK10513 272563007662 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 272563007663 active site 272563007664 motif I; other site 272563007665 motif II; other site 272563007666 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563007667 Alkylmercury lyase; Region: MerB; pfam03243 272563007668 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272563007669 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 272563007670 Walker A/P-loop; other site 272563007671 ATP binding site [chemical binding]; other site 272563007672 Q-loop/lid; other site 272563007673 ABC transporter signature motif; other site 272563007674 Walker B; other site 272563007675 D-loop; other site 272563007676 H-loop/switch region; other site 272563007677 Evidence 7 : Gene remnant; PubMedId : 11781802,18504552, 18952792, 8384683 ; This CDS contains an in-frame TGA stop codon. 272563007678 YhfZ C-terminal domain; Region: YhfZ_C; pfam14503 272563007679 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 272563007680 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272563007681 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 272563007682 Predicted permeases [General function prediction only]; Region: COG0701 272563007683 DsrE/DsrF-like family; Region: DrsE; cl00672 272563007684 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 272563007685 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 272563007686 dimerization interface [polypeptide binding]; other site 272563007687 active site 272563007688 L-aspartate oxidase; Provisional; Region: PRK06175 272563007689 FAD binding domain; Region: FAD_binding_2; pfam00890 272563007690 Quinolinate synthetase A protein; Region: NadA; pfam02445 272563007691 Carbon starvation protein CstA; Region: CstA; pfam02554 272563007692 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 272563007693 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 272563007694 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 272563007695 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272563007696 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 272563007697 nudix motif; other site 272563007698 Predicted membrane protein [Function unknown]; Region: COG2364 272563007699 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563007700 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563007701 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563007702 butyrate kinase; Provisional; Region: PRK03011 272563007703 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563007704 nucleotide binding site [chemical binding]; other site 272563007705 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 272563007706 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 272563007707 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 272563007708 dimer interface [polypeptide binding]; other site 272563007709 PYR/PP interface [polypeptide binding]; other site 272563007710 TPP binding site [chemical binding]; other site 272563007711 substrate binding site [chemical binding]; other site 272563007712 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 272563007713 TPP-binding site; other site 272563007714 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007715 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 272563007716 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 272563007717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563007718 homodimer interface [polypeptide binding]; other site 272563007719 catalytic residue [active] 272563007720 Propionate catabolism activator; Region: PrpR_N; pfam06506 272563007721 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272563007722 PAS domain; Region: PAS; smart00091 272563007723 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 272563007724 Walker A motif; other site 272563007725 ATP binding site [chemical binding]; other site 272563007726 Walker B motif; other site 272563007727 arginine finger; other site 272563007728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563007729 metal binding site [ion binding]; metal-binding site 272563007730 active site 272563007731 I-site; other site 272563007732 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563007733 metal binding site [ion binding]; metal-binding site 272563007734 active site 272563007735 I-site; other site 272563007736 Protein of unknown function (DUF3785); Region: DUF3785; pfam12653 272563007737 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 272563007738 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 272563007739 active site 272563007740 FMN binding site [chemical binding]; other site 272563007741 substrate binding site [chemical binding]; other site 272563007742 putative catalytic residues [active] 272563007743 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272563007744 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 272563007745 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563007746 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 272563007747 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 272563007748 Transglycosylase; Region: Transgly; pfam00912 272563007749 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272563007750 active site 272563007751 catalytic site [active] 272563007752 substrate binding site [chemical binding]; other site 272563007753 MORN repeat; Region: MORN; cl14787 272563007754 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 272563007755 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 272563007756 active site 272563007757 catalytic site [active] 272563007758 substrate binding site [chemical binding]; other site 272563007759 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 272563007760 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 272563007761 Ligand Binding Site [chemical binding]; other site 272563007762 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 272563007763 CotJB protein; Region: CotJB; pfam12652 272563007764 Mn-containing catalase [Inorganic ion transport and metabolism]; Region: COG3546 272563007765 dinuclear metal binding motif [ion binding]; other site 272563007766 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563007767 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563007768 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563007769 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272563007770 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563007771 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272563007772 trimer interface [polypeptide binding]; other site 272563007773 active site 272563007774 DNA topoisomerase III; Provisional; Region: PRK07726 272563007775 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 272563007776 active site 272563007777 putative interdomain interaction site [polypeptide binding]; other site 272563007778 putative metal-binding site [ion binding]; other site 272563007779 putative nucleotide binding site [chemical binding]; other site 272563007780 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 272563007781 domain I; other site 272563007782 DNA binding groove [nucleotide binding] 272563007783 phosphate binding site [ion binding]; other site 272563007784 domain II; other site 272563007785 domain III; other site 272563007786 nucleotide binding site [chemical binding]; other site 272563007787 catalytic site [active] 272563007788 domain IV; other site 272563007789 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 272563007790 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563007791 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 272563007792 dimerization interface [polypeptide binding]; other site 272563007793 putative Zn2+ binding site [ion binding]; other site 272563007794 putative DNA binding site [nucleotide binding]; other site 272563007795 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272563007796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 272563007797 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 272563007798 HlyD family secretion protein; Region: HlyD_3; pfam13437 272563007799 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272563007800 MMPL family; Region: MMPL; cl14618 272563007801 MMPL family; Region: MMPL; cl14618 272563007802 Outer membrane efflux protein; Region: OEP; pfam02321 272563007803 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 272563007804 NMD3 family; Region: NMD3; pfam04981 272563007805 Double zinc ribbon; Region: DZR; pfam12773 272563007806 pyruvate phosphate dikinase; Provisional; Region: PRK09279 272563007807 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272563007808 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272563007809 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 272563007810 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 272563007811 HTH domain; Region: HTH_11; pfam08279 272563007812 FOG: CBS domain [General function prediction only]; Region: COG0517 272563007813 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 272563007814 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 272563007815 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 272563007816 NAD(P) binding site [chemical binding]; other site 272563007817 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 272563007818 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 272563007819 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 272563007820 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563007821 HTH domain; Region: HTH_11; pfam08279 272563007822 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563007823 PRD domain; Region: PRD; pfam00874 272563007824 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 272563007825 active site 272563007826 P-loop; other site 272563007827 phosphorylation site [posttranslational modification] 272563007828 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563007829 active site 272563007830 phosphorylation site [posttranslational modification] 272563007831 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 272563007832 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 272563007833 Nucleoside recognition; Region: Gate; pfam07670 272563007834 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 272563007835 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 272563007836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563007837 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563007838 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563007839 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563007840 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 272563007841 active site 272563007842 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563007843 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 272563007844 metal binding site [ion binding]; metal-binding site 272563007845 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272563007846 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 272563007847 putative substrate translocation pore; other site 272563007848 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563007849 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 272563007850 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 272563007851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563007852 homodimer interface [polypeptide binding]; other site 272563007853 catalytic residue [active] 272563007854 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 272563007855 butyrate kinase; Provisional; Region: PRK03011 272563007856 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 272563007857 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 272563007858 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 272563007859 TPP-binding site [chemical binding]; other site 272563007860 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 272563007861 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 272563007862 dimer interface [polypeptide binding]; other site 272563007863 PYR/PP interface [polypeptide binding]; other site 272563007864 TPP binding site [chemical binding]; other site 272563007865 substrate binding site [chemical binding]; other site 272563007866 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272563007867 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007868 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563007869 Transcriptional regulator [Transcription]; Region: IclR; COG1414 272563007870 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 272563007871 putative DNA binding site [nucleotide binding]; other site 272563007872 putative Zn2+ binding site [ion binding]; other site 272563007873 Bacterial transcriptional regulator; Region: IclR; pfam01614 272563007874 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 272563007875 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272563007876 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 272563007877 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272563007878 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563007879 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 272563007880 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 272563007881 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272563007882 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 272563007883 dimer interface [polypeptide binding]; other site 272563007884 motif 1; other site 272563007885 active site 272563007886 motif 2; other site 272563007887 motif 3; other site 272563007888 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 272563007889 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 272563007890 Recombination protein O N terminal; Region: RecO_N; pfam11967 272563007891 Recombination protein O C terminal; Region: RecO_C; pfam02565 272563007892 YqzL-like protein; Region: YqzL; pfam14006 272563007893 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 272563007894 MgtE intracellular N domain; Region: MgtE_N; pfam03448 272563007895 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 272563007896 Divalent cation transporter; Region: MgtE; cl00786 272563007897 GTPase Era; Reviewed; Region: era; PRK00089 272563007898 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 272563007899 G1 box; other site 272563007900 GTP/Mg2+ binding site [chemical binding]; other site 272563007901 Switch I region; other site 272563007902 G2 box; other site 272563007903 Switch II region; other site 272563007904 G3 box; other site 272563007905 G4 box; other site 272563007906 G5 box; other site 272563007907 KH domain; Region: KH_2; pfam07650 272563007908 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 272563007909 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 272563007910 active site 272563007911 catalytic motif [active] 272563007912 Zn binding site [ion binding]; other site 272563007913 Integral membrane undecaprenol kinase domain co-occurring with type 2 phosphatidic acid phosphatase-like domains; Region: UDPK_IM_PAP2_like; cd14266 272563007914 trimer interface [polypeptide binding]; other site 272563007915 putative active site [active] 272563007916 Zn binding site [ion binding]; other site 272563007917 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 272563007918 active site 272563007919 metal-binding heat shock protein; Provisional; Region: PRK00016 272563007920 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 272563007921 PhoH-like protein; Region: PhoH; pfam02562 272563007922 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 272563007923 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 272563007924 YabP family; Region: YabP; pfam07873 272563007925 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 272563007926 30S subunit binding site; other site 272563007927 TspO/MBR family; Region: TspO_MBR; pfam03073 272563007928 Yqey-like protein; Region: YqeY; pfam09424 272563007929 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 272563007930 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 272563007931 nucleotide binding site/active site [active] 272563007932 HIT family signature motif; other site 272563007933 catalytic residue [active] 272563007934 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 272563007935 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272563007936 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 272563007937 FeS/SAM binding site; other site 272563007938 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 272563007939 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 272563007940 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 272563007941 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 272563007942 S-adenosylmethionine binding site [chemical binding]; other site 272563007943 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 272563007944 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 272563007945 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 272563007946 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 272563007947 ATP binding site [chemical binding]; other site 272563007948 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-B; cd09658 272563007949 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09687 272563007950 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 272563007951 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272563007952 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 272563007953 Walker A/P-loop; other site 272563007954 ATP binding site [chemical binding]; other site 272563007955 Q-loop/lid; other site 272563007956 ABC transporter signature motif; other site 272563007957 Walker B; other site 272563007958 D-loop; other site 272563007959 H-loop/switch region; other site 272563007960 TOBE domain; Region: TOBE_2; pfam08402 272563007961 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 272563007962 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 272563007963 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563007964 putative substrate translocation pore; other site 272563007965 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563007966 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563007967 nucleotide binding site [chemical binding]; other site 272563007968 chaperone protein DnaJ; Provisional; Region: PRK10767 272563007969 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 272563007970 HSP70 interaction site [polypeptide binding]; other site 272563007971 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272563007972 substrate binding site [polypeptide binding]; other site 272563007973 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 272563007974 Zn binding sites [ion binding]; other site 272563007975 dimer interface [polypeptide binding]; other site 272563007976 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272563007977 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 272563007978 nucleotide binding site [chemical binding]; other site 272563007979 NEF interaction site [polypeptide binding]; other site 272563007980 SBD interface [polypeptide binding]; other site 272563007981 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 272563007982 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 272563007983 dimer interface [polypeptide binding]; other site 272563007984 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272563007985 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 272563007986 HrcA protein C terminal domain; Region: HrcA; pfam01628 272563007987 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 272563007988 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 272563007989 FeS/SAM binding site; other site 272563007990 HemN C-terminal domain; Region: HemN_C; pfam06969 272563007991 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 272563007992 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 272563007993 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272563007994 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 272563007995 active site 272563007996 NTP binding site [chemical binding]; other site 272563007997 metal binding triad [ion binding]; metal-binding site 272563007998 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272563007999 HD domain; Region: HD; pfam01966 272563008000 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 272563008001 GTP-binding protein LepA; Provisional; Region: PRK05433 272563008002 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 272563008003 G1 box; other site 272563008004 putative GEF interaction site [polypeptide binding]; other site 272563008005 GTP/Mg2+ binding site [chemical binding]; other site 272563008006 Switch I region; other site 272563008007 G2 box; other site 272563008008 G3 box; other site 272563008009 Switch II region; other site 272563008010 G4 box; other site 272563008011 G5 box; other site 272563008012 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 272563008013 Elongation Factor G, domain II; Region: EFG_II; pfam14492 272563008014 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 272563008015 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272563008016 stage II sporulation protein P; Region: spore_II_P; TIGR02867 272563008017 germination protease; Provisional; Region: PRK12362 272563008018 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272563008019 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 272563008020 dimerization interface [polypeptide binding]; other site 272563008021 putative DNA binding site [nucleotide binding]; other site 272563008022 putative Zn2+ binding site [ion binding]; other site 272563008023 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 272563008024 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 272563008025 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 272563008026 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 272563008027 Competence protein; Region: Competence; pfam03772 272563008028 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 272563008029 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 272563008030 Sterol carrier protein domain; Region: SCP2_2; pfam13530 272563008031 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 272563008032 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 272563008033 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563008034 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 272563008035 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 272563008036 putative ATP binding site [chemical binding]; other site 272563008037 putative substrate interface [chemical binding]; other site 272563008038 Domain of unknown function (DUF348); Region: DUF348; pfam03990 272563008039 G5 domain; Region: G5; pfam07501 272563008040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 272563008041 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 272563008042 ligand binding site [chemical binding]; other site 272563008043 active site 272563008044 UGI interface [polypeptide binding]; other site 272563008045 catalytic site [active] 272563008046 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 272563008047 trimer interface [polypeptide binding]; other site 272563008048 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 272563008049 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 272563008050 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 272563008051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008052 homodimer interface [polypeptide binding]; other site 272563008053 catalytic residue [active] 272563008054 aminopeptidase; Provisional; Region: PRK09795 272563008055 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272563008056 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 272563008057 active site 272563008058 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 272563008059 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 272563008060 active site 272563008061 P-loop; other site 272563008062 phosphorylation site [posttranslational modification] 272563008063 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 272563008064 active site 272563008065 phosphorylation site [posttranslational modification] 272563008066 putative frv operon regulatory protein; Provisional; Region: PRK09863 272563008067 HTH domain; Region: HTH_11; pfam08279 272563008068 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563008069 PRD domain; Region: PRD; pfam00874 272563008070 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 272563008071 active site 272563008072 P-loop; other site 272563008073 phosphorylation site [posttranslational modification] 272563008074 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 272563008075 active site 272563008076 phosphorylation site [posttranslational modification] 272563008077 dipeptidase PepV; Reviewed; Region: PRK07318 272563008078 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 272563008079 active site 272563008080 metal binding site [ion binding]; metal-binding site 272563008081 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 272563008082 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl19057 272563008083 PAS domain S-box; Region: sensory_box; TIGR00229 272563008084 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272563008085 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 272563008086 dimer interface [polypeptide binding]; other site 272563008087 phosphorylation site [posttranslational modification] 272563008088 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 272563008089 ATP binding site [chemical binding]; other site 272563008090 Mg2+ binding site [ion binding]; other site 272563008091 G-X-G motif; other site 272563008092 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 272563008093 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 272563008094 G1 box; other site 272563008095 putative GEF interaction site [polypeptide binding]; other site 272563008096 GTP/Mg2+ binding site [chemical binding]; other site 272563008097 Switch I region; other site 272563008098 G2 box; other site 272563008099 G3 box; other site 272563008100 Switch II region; other site 272563008101 G4 box; other site 272563008102 G5 box; other site 272563008103 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 272563008104 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 272563008105 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 272563008106 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 272563008107 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 272563008108 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 272563008109 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 272563008110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563008111 catalytic residue [active] 272563008112 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 272563008113 dimerization interface [polypeptide binding]; other site 272563008114 putative ATP binding site [chemical binding]; other site 272563008115 SLBB domain; Region: SLBB; pfam10531 272563008116 comEA protein; Region: comE; TIGR01259 272563008117 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 272563008118 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 272563008119 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 272563008120 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 272563008121 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 272563008122 argininosuccinate lyase; Provisional; Region: PRK00855 272563008123 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272563008124 active sites [active] 272563008125 tetramer interface [polypeptide binding]; other site 272563008126 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272563008127 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563008128 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 272563008129 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 272563008130 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 272563008131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008132 homodimer interface [polypeptide binding]; other site 272563008133 catalytic residue [active] 272563008134 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272563008135 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 272563008136 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563008137 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272563008138 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 272563008139 motif II; other site 272563008140 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272563008141 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 272563008142 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 272563008143 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563008144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563008145 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 272563008146 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563008147 putative substrate translocation pore; other site 272563008148 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272563008149 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272563008150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563008151 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563008152 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 272563008153 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272563008154 NAD(P) binding site [chemical binding]; other site 272563008155 LDH/MDH dimer interface [polypeptide binding]; other site 272563008156 substrate binding site [chemical binding]; other site 272563008157 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563008158 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 272563008159 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 272563008160 active site turn [active] 272563008161 phosphorylation site [posttranslational modification] 272563008162 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563008163 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563008164 PRD domain; Region: PRD; pfam00874 272563008165 PRD domain; Region: PRD; pfam00874 272563008166 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563008167 HPr interaction site; other site 272563008168 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563008169 active site 272563008170 phosphorylation site [posttranslational modification] 272563008171 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 272563008172 homotrimer interaction site [polypeptide binding]; other site 272563008173 putative active site [active] 272563008174 threonine dehydratase; Provisional; Region: PRK08198 272563008175 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 272563008176 tetramer interface [polypeptide binding]; other site 272563008177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008178 catalytic residue [active] 272563008179 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 272563008180 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 272563008181 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 272563008182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008183 homodimer interface [polypeptide binding]; other site 272563008184 catalytic residue [active] 272563008185 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 272563008186 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 272563008187 active site 272563008188 homotetramer interface [polypeptide binding]; other site 272563008189 homodimer interface [polypeptide binding]; other site 272563008190 Penicillinase repressor; Region: Penicillinase_R; cl17580 272563008191 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008192 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008193 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008194 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 272563008195 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 272563008196 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 272563008197 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 272563008198 Int/Topo IB signature motif; other site 272563008199 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 272563008200 VanZ like family; Region: VanZ; pfam04892 272563008201 Evidence 7 : Gene remnant 272563008202 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272563008203 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272563008204 active site 272563008205 HIGH motif; other site 272563008206 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272563008207 KMSKS motif; other site 272563008208 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272563008209 tRNA binding surface [nucleotide binding]; other site 272563008210 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 272563008211 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272563008212 Zn2+ binding site [ion binding]; other site 272563008213 Mg2+ binding site [ion binding]; other site 272563008214 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272563008215 active site 272563008216 (T/H)XGH motif; other site 272563008217 recombination regulator RecX; Reviewed; Region: recX; PRK00117 272563008218 glycogen branching enzyme; Provisional; Region: PRK12313 272563008219 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 272563008220 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 272563008221 active site 272563008222 catalytic site [active] 272563008223 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 272563008224 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563008225 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563008226 Uncharacterized nucleotidyltransferase; Region: NTP_transf_5; pfam14907 272563008227 Helix-turn-helix domain; Region: HTH_18; pfam12833 272563008228 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 272563008229 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272563008230 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563008231 catalytic residue [active] 272563008232 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563008233 FtsX-like permease family; Region: FtsX; pfam02687 272563008234 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563008235 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563008236 FtsX-like permease family; Region: FtsX; pfam02687 272563008237 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563008238 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563008239 Walker A/P-loop; other site 272563008240 ATP binding site [chemical binding]; other site 272563008241 Q-loop/lid; other site 272563008242 ABC transporter signature motif; other site 272563008243 Walker B; other site 272563008244 D-loop; other site 272563008245 H-loop/switch region; other site 272563008246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563008247 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 272563008248 dimer interface [polypeptide binding]; other site 272563008249 phosphorylation site [posttranslational modification] 272563008250 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 272563008251 ATP binding site [chemical binding]; other site 272563008252 Mg2+ binding site [ion binding]; other site 272563008253 G-X-G motif; other site 272563008254 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563008255 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 272563008256 active site 272563008257 phosphorylation site [posttranslational modification] 272563008258 intermolecular recognition site; other site 272563008259 dimerization interface [polypeptide binding]; other site 272563008260 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 272563008261 DNA binding site [nucleotide binding] 272563008262 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272563008263 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 272563008264 putative active site [active] 272563008265 putative metal binding site [ion binding]; other site 272563008266 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272563008267 ribonuclease Z; Reviewed; Region: PRK00055 272563008268 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 272563008269 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563008270 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563008271 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 272563008272 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272563008273 DHHW protein; Region: DHHW; pfam14286 272563008274 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 272563008275 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272563008276 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 272563008277 DXD motif; other site 272563008278 PilZ domain; Region: PilZ; pfam07238 272563008279 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 272563008280 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 272563008281 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272563008282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563008283 dimer interface [polypeptide binding]; other site 272563008284 conserved gate region; other site 272563008285 putative PBP binding loops; other site 272563008286 ABC-ATPase subunit interface; other site 272563008287 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272563008288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563008289 dimer interface [polypeptide binding]; other site 272563008290 conserved gate region; other site 272563008291 putative PBP binding loops; other site 272563008292 ABC-ATPase subunit interface; other site 272563008293 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272563008294 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272563008295 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 272563008296 putative active site [active] 272563008297 Evidence 7 : Gene remnant; PubMedId : 19781061 272563008298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272563008299 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272563008300 Probable transposase; Region: OrfB_IS605; pfam01385 272563008301 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272563008302 Transposase IS200 like; Region: Y1_Tnp; cl00848 272563008303 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 272563008304 active site 272563008305 P-loop; other site 272563008306 phosphorylation site [posttranslational modification] 272563008307 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563008308 HTH domain; Region: HTH_11; pfam08279 272563008309 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563008310 PRD domain; Region: PRD; pfam00874 272563008311 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 272563008312 active site 272563008313 P-loop; other site 272563008314 phosphorylation site [posttranslational modification] 272563008315 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 272563008316 active site 272563008317 phosphorylation site [posttranslational modification] 272563008318 hypothetical protein; Region: PHA00671 272563008319 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 272563008320 active site 272563008321 (T/H)XGH motif; other site 272563008322 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 272563008323 S-adenosylmethionine binding site [chemical binding]; other site 272563008324 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 272563008325 Y-family of DNA polymerases; Region: PolY; cl12025 272563008326 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 272563008327 generic binding surface II; other site 272563008328 ssDNA binding site; other site 272563008329 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 272563008330 ATP binding site [chemical binding]; other site 272563008331 putative Mg++ binding site [ion binding]; other site 272563008332 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 272563008333 nucleotide binding region [chemical binding]; other site 272563008334 ATP-binding site [chemical binding]; other site 272563008335 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 272563008336 DAK2 domain; Region: Dak2; pfam02734 272563008337 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 272563008338 Asp23 family; Region: Asp23; pfam03780 272563008339 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 272563008340 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 272563008341 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 272563008342 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563008343 DNA binding residues [nucleotide binding] 272563008344 dimer interface [polypeptide binding]; other site 272563008345 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 272563008346 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563008347 HTH domain; Region: HTH_11; pfam08279 272563008348 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563008349 PRD domain; Region: PRD; pfam00874 272563008350 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 272563008351 active site 272563008352 P-loop; other site 272563008353 phosphorylation site [posttranslational modification] 272563008354 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 272563008355 active site 272563008356 phosphorylation site [posttranslational modification] 272563008357 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 272563008358 active site 272563008359 phosphorylation site [posttranslational modification] 272563008360 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 272563008361 active site 272563008362 P-loop; other site 272563008363 phosphorylation site [posttranslational modification] 272563008364 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 272563008365 alpha-mannosidase; Provisional; Region: PRK09819 272563008366 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 272563008367 active site 272563008368 metal binding site [ion binding]; metal-binding site 272563008369 catalytic site [active] 272563008370 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 272563008371 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 272563008372 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563008373 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 272563008374 dimer interface [polypeptide binding]; other site 272563008375 phosphorylation site [posttranslational modification] 272563008376 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 272563008377 ATP binding site [chemical binding]; other site 272563008378 Mg2+ binding site [ion binding]; other site 272563008379 G-X-G motif; other site 272563008380 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563008381 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 272563008382 active site 272563008383 phosphorylation site [posttranslational modification] 272563008384 intermolecular recognition site; other site 272563008385 dimerization interface [polypeptide binding]; other site 272563008386 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 272563008387 DNA binding site [nucleotide binding] 272563008388 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272563008389 FMN binding site [chemical binding]; other site 272563008390 dimer interface [polypeptide binding]; other site 272563008391 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272563008392 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563008393 Thiamine pyrophosphokinase; Region: TPK; cd07995 272563008394 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 272563008395 active site 272563008396 dimerization interface [polypeptide binding]; other site 272563008397 thiamine binding site [chemical binding]; other site 272563008398 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 272563008399 substrate binding site [chemical binding]; other site 272563008400 hexamer interface [polypeptide binding]; other site 272563008401 metal binding site [ion binding]; metal-binding site 272563008402 GTPase RsgA; Reviewed; Region: PRK00098 272563008403 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 272563008404 RNA binding site [nucleotide binding]; other site 272563008405 homodimer interface [polypeptide binding]; other site 272563008406 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 272563008407 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272563008408 GTP/Mg2+ binding site [chemical binding]; other site 272563008409 G4 box; other site 272563008410 G5 box; other site 272563008411 G1 box; other site 272563008412 Switch I region; other site 272563008413 G2 box; other site 272563008414 G3 box; other site 272563008415 Switch II region; other site 272563008416 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 272563008417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272563008418 NAD(P) binding site [chemical binding]; other site 272563008419 active site 272563008420 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 272563008421 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272563008422 active site 272563008423 ATP binding site [chemical binding]; other site 272563008424 substrate binding site [chemical binding]; other site 272563008425 activation loop (A-loop); other site 272563008426 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 272563008427 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 272563008428 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 272563008429 active site 272563008430 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 272563008431 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 272563008432 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 272563008433 FeS/SAM binding site; other site 272563008434 16S rRNA methyltransferase B; Provisional; Region: PRK14902 272563008435 NusB family; Region: NusB; pfam01029 272563008436 putative RNA binding site [nucleotide binding]; other site 272563008437 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 272563008438 S-adenosylmethionine binding site [chemical binding]; other site 272563008439 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 272563008440 Protein of unknown function DUF116; Region: DUF116; pfam01976 272563008441 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272563008442 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272563008443 putative active site [active] 272563008444 substrate binding site [chemical binding]; other site 272563008445 putative cosubstrate binding site; other site 272563008446 catalytic site [active] 272563008447 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272563008448 substrate binding site [chemical binding]; other site 272563008449 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 272563008450 active site 272563008451 catalytic residues [active] 272563008452 metal binding site [ion binding]; metal-binding site 272563008453 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 272563008454 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 272563008455 ATP binding site [chemical binding]; other site 272563008456 putative Mg++ binding site [ion binding]; other site 272563008457 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 272563008458 nucleotide binding region [chemical binding]; other site 272563008459 ATP-binding site [chemical binding]; other site 272563008460 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 272563008461 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 272563008462 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 272563008463 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 272563008464 Guanylate kinase; Region: Guanylate_kin; pfam00625 272563008465 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 272563008466 catalytic site [active] 272563008467 G-X2-G-X-G-K; other site 272563008468 hypothetical protein; Provisional; Region: PRK11820 272563008469 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 272563008470 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 272563008471 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 272563008472 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 272563008473 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 272563008474 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 272563008475 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 272563008476 tetramer interface [polypeptide binding]; other site 272563008477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008478 catalytic residue [active] 272563008479 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 272563008480 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 272563008481 Domain of unknown function (DUF814); Region: DUF814; pfam05670 272563008482 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272563008483 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563008484 ABC transporter; Region: ABC_tran_2; pfam12848 272563008485 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563008486 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 272563008487 Sulfate transporter family; Region: Sulfate_transp; cl19250 272563008488 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563008489 active site 272563008490 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 272563008491 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 272563008492 RNA binding surface [nucleotide binding]; other site 272563008493 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272563008494 active site 272563008495 lipoprotein signal peptidase; Provisional; Region: PRK14768 272563008496 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272563008497 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 272563008498 NodB motif; other site 272563008499 active site 272563008500 catalytic site [active] 272563008501 metal binding site [ion binding]; metal-binding site 272563008502 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272563008503 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 272563008504 Carbon starvation protein CstA; Region: CstA; pfam02554 272563008505 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 272563008506 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563008507 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 272563008508 active site 272563008509 phosphorylation site [posttranslational modification] 272563008510 intermolecular recognition site; other site 272563008511 dimerization interface [polypeptide binding]; other site 272563008512 LytTr DNA-binding domain; Region: LytTR; smart00850 272563008513 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 272563008514 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 272563008515 Histidine kinase; Region: His_kinase; pfam06580 272563008516 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 272563008517 ATP binding site [chemical binding]; other site 272563008518 Mg2+ binding site [ion binding]; other site 272563008519 G-X-G motif; other site 272563008520 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; cl19078 272563008521 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563008522 LytTr DNA-binding domain; Region: LytTR; smart00850 272563008523 Evidence 7 : Gene remnant; PubMedId : 17693517,16887714, 15673507, 15131151, 11761709,11553537,10802189, 9119480 ; This CDS accumulated several frameshift mutations and in-frame stop codons, and is lacking the 245 C-terminal amino acids. 272563008524 Evidence 7 : Gene remnant; PubMedId : 17693517,16887714, 15673507, 15131151, 11761709,11553537,10802189, 9119480 ; This CDS has accumulated several frameshift mutations and in-frame stop codons, and is lacking the 354 N-terminal amino acids. 272563008525 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 272563008526 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272563008527 active site 272563008528 HIGH motif; other site 272563008529 dimer interface [polypeptide binding]; other site 272563008530 KMSKS motif; other site 272563008531 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 272563008532 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 272563008533 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 272563008534 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272563008535 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272563008536 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 272563008537 active site 272563008538 EDD domain protein, DegV family; Region: DegV; TIGR00762 272563008539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563008540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563008541 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272563008542 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563008543 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272563008544 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 272563008545 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 272563008546 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272563008547 active site 272563008548 HIGH motif; other site 272563008549 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272563008550 KMSKS motif; other site 272563008551 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 272563008552 tRNA binding surface [nucleotide binding]; other site 272563008553 anticodon binding site; other site 272563008554 DivIVA protein; Region: DivIVA; pfam05103 272563008555 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 272563008556 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 272563008557 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 272563008558 RNA binding surface [nucleotide binding]; other site 272563008559 YGGT family; Region: YGGT; pfam02325 272563008560 Protein of unknown function (DUF552); Region: DUF552; cl00775 272563008561 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 272563008562 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272563008563 catalytic residue [active] 272563008564 HlyD family secretion protein; Region: HlyD_2; pfam12700 272563008565 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 272563008566 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 272563008567 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 272563008568 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 272563008569 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 272563008570 G1 box; other site 272563008571 GTP/Mg2+ binding site [chemical binding]; other site 272563008572 G2 box; other site 272563008573 Switch I region; other site 272563008574 G3 box; other site 272563008575 Switch II region; other site 272563008576 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 272563008577 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 272563008578 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272563008579 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 272563008580 GTP-binding protein Der; Reviewed; Region: PRK00093 272563008581 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 272563008582 G1 box; other site 272563008583 GTP/Mg2+ binding site [chemical binding]; other site 272563008584 Switch I region; other site 272563008585 G2 box; other site 272563008586 Switch II region; other site 272563008587 G3 box; other site 272563008588 G4 box; other site 272563008589 G5 box; other site 272563008590 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 272563008591 G1 box; other site 272563008592 GTP/Mg2+ binding site [chemical binding]; other site 272563008593 Switch I region; other site 272563008594 G2 box; other site 272563008595 G3 box; other site 272563008596 Switch II region; other site 272563008597 G4 box; other site 272563008598 G5 box; other site 272563008599 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 272563008600 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 272563008601 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 272563008602 Protein of unknown function (DUF512); Region: DUF512; pfam04459 272563008603 YIEGIA protein; Region: YIEGIA; pfam14045 272563008604 YIEGIA protein; Region: YIEGIA; pfam14045 272563008605 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 272563008606 dimerization interface [polypeptide binding]; other site 272563008607 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272563008608 PAS domain; Region: PAS; smart00091 272563008609 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 272563008610 dimer interface [polypeptide binding]; other site 272563008611 phosphorylation site [posttranslational modification] 272563008612 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 272563008613 ATP binding site [chemical binding]; other site 272563008614 Mg2+ binding site [ion binding]; other site 272563008615 G-X-G motif; other site 272563008616 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563008617 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 272563008618 active site 272563008619 phosphorylation site [posttranslational modification] 272563008620 intermolecular recognition site; other site 272563008621 dimerization interface [polypeptide binding]; other site 272563008622 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 272563008623 DNA binding site [nucleotide binding] 272563008624 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 272563008625 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 272563008626 ATP cone domain; Region: ATP-cone; pfam03477 272563008627 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 272563008628 sporulation sigma factor SigG; Reviewed; Region: PRK08215 272563008629 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563008630 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272563008631 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 272563008632 DNA binding residues [nucleotide binding] 272563008633 sporulation sigma factor SigE; Reviewed; Region: PRK08301 272563008634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272563008635 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 272563008636 DNA binding residues [nucleotide binding] 272563008637 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 272563008638 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272563008639 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 272563008640 cell division protein FtsZ; Validated; Region: PRK09330 272563008641 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 272563008642 nucleotide binding site [chemical binding]; other site 272563008643 SulA interaction site; other site 272563008644 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 272563008645 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cd00890 272563008646 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 272563008647 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 272563008648 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 272563008649 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 272563008650 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 272563008651 active site 272563008652 homodimer interface [polypeptide binding]; other site 272563008653 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272563008654 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 272563008655 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272563008656 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272563008657 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 272563008658 Mg++ binding site [ion binding]; other site 272563008659 putative catalytic motif [active] 272563008660 putative substrate binding site [chemical binding]; other site 272563008661 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 272563008662 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272563008663 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272563008664 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272563008665 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 272563008666 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 272563008667 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 272563008668 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 272563008669 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 272563008670 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 272563008671 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272563008672 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272563008673 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272563008674 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272563008675 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272563008676 GTP-binding protein YchF; Reviewed; Region: PRK09601 272563008677 YchF GTPase; Region: YchF; cd01900 272563008678 G1 box; other site 272563008679 GTP/Mg2+ binding site [chemical binding]; other site 272563008680 Switch I region; other site 272563008681 G2 box; other site 272563008682 Switch II region; other site 272563008683 G3 box; other site 272563008684 G4 box; other site 272563008685 G5 box; other site 272563008686 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 272563008687 Cache domain; Region: Cache_1; pfam02743 272563008688 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563008689 metal binding site [ion binding]; metal-binding site 272563008690 active site 272563008691 I-site; other site 272563008692 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 272563008693 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 272563008694 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272563008695 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272563008696 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272563008697 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 272563008698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563008699 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563008700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563008701 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563008702 HPr interaction site; other site 272563008703 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563008704 active site 272563008705 phosphorylation site [posttranslational modification] 272563008706 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563008707 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 272563008708 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 272563008709 active site turn [active] 272563008710 phosphorylation site [posttranslational modification] 272563008711 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563008712 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563008713 PRD domain; Region: PRD; pfam00874 272563008714 PRD domain; Region: PRD; pfam00874 272563008715 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 272563008716 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 272563008717 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272563008718 Walker A/P-loop; other site 272563008719 ATP binding site [chemical binding]; other site 272563008720 Q-loop/lid; other site 272563008721 ABC transporter signature motif; other site 272563008722 Walker B; other site 272563008723 D-loop; other site 272563008724 H-loop/switch region; other site 272563008725 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272563008726 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272563008727 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272563008728 Walker A/P-loop; other site 272563008729 ATP binding site [chemical binding]; other site 272563008730 Q-loop/lid; other site 272563008731 ABC transporter signature motif; other site 272563008732 Walker B; other site 272563008733 D-loop; other site 272563008734 H-loop/switch region; other site 272563008735 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272563008736 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272563008737 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 272563008738 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272563008739 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563008740 dimer interface [polypeptide binding]; other site 272563008741 conserved gate region; other site 272563008742 putative PBP binding loops; other site 272563008743 ABC-ATPase subunit interface; other site 272563008744 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272563008745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563008746 dimer interface [polypeptide binding]; other site 272563008747 conserved gate region; other site 272563008748 putative PBP binding loops; other site 272563008749 ABC-ATPase subunit interface; other site 272563008750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563008751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563008752 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 272563008753 dimerization interface [polypeptide binding]; other site 272563008754 putative acyltransferase; Provisional; Region: PRK05790 272563008755 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 272563008756 dimer interface [polypeptide binding]; other site 272563008757 active site 272563008758 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 272563008759 Coenzyme A transferase; Region: CoA_trans; cl17247 272563008760 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 272563008761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272563008762 NAD(P) binding site [chemical binding]; other site 272563008763 active site 272563008764 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 272563008765 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272563008766 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 272563008767 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 272563008768 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 272563008769 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 272563008770 dimer interface [polypeptide binding]; other site 272563008771 PYR/PP interface [polypeptide binding]; other site 272563008772 TPP binding site [chemical binding]; other site 272563008773 substrate binding site [chemical binding]; other site 272563008774 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 272563008775 Domain of unknown function; Region: EKR; pfam10371 272563008776 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 272563008777 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 272563008778 TPP-binding site [chemical binding]; other site 272563008779 dimer interface [polypeptide binding]; other site 272563008780 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 272563008781 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272563008782 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272563008783 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563008784 GAF domain; Region: GAF_2; pfam13185 272563008785 GAF domain; Region: GAF_3; pfam13492 272563008786 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 272563008787 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 272563008788 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272563008789 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563008790 HI0933-like protein; Region: HI0933_like; pfam03486 272563008791 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563008792 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 272563008793 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 272563008794 active site 272563008795 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563008796 active site 272563008797 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 272563008798 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 272563008799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008800 homodimer interface [polypeptide binding]; other site 272563008801 catalytic residue [active] 272563008802 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 272563008803 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 272563008804 asparagine synthetase AsnA; Provisional; Region: PRK05425 272563008805 motif 1; other site 272563008806 dimer interface [polypeptide binding]; other site 272563008807 active site 272563008808 motif 2; other site 272563008809 motif 3; other site 272563008810 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 272563008811 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 272563008812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008813 homodimer interface [polypeptide binding]; other site 272563008814 catalytic residue [active] 272563008815 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 272563008816 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563008817 metal binding site [ion binding]; metal-binding site 272563008818 putative dimer interface [polypeptide binding]; other site 272563008819 hypothetical protein; Provisional; Region: PRK10519 272563008820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 272563008821 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 272563008822 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563008823 Walker A motif; other site 272563008824 ATP binding site [chemical binding]; other site 272563008825 Walker B motif; other site 272563008826 arginine finger; other site 272563008827 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 272563008828 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 272563008829 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272563008830 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272563008831 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 272563008832 Sulfate transporter family; Region: Sulfate_transp; cl19250 272563008833 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 272563008834 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272563008835 active site 272563008836 putative substrate binding pocket [chemical binding]; other site 272563008837 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 272563008838 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 272563008839 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563008840 putative substrate translocation pore; other site 272563008841 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 272563008842 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272563008843 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272563008844 shikimate binding site; other site 272563008845 NAD(P) binding site [chemical binding]; other site 272563008846 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 272563008847 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 272563008848 active site 272563008849 FMN binding site [chemical binding]; other site 272563008850 substrate binding site [chemical binding]; other site 272563008851 putative catalytic residue [active] 272563008852 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563008853 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272563008854 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272563008855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563008856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563008857 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 272563008858 putative dimerization interface [polypeptide binding]; other site 272563008859 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 272563008860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272563008861 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272563008862 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272563008863 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272563008864 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272563008865 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 272563008866 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008867 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008868 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008869 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272563008870 UDP-glucose 4-epimerase; Region: PLN02240 272563008871 NAD binding site [chemical binding]; other site 272563008872 homodimer interface [polypeptide binding]; other site 272563008873 active site 272563008874 substrate binding site [chemical binding]; other site 272563008875 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272563008876 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 272563008877 active site 272563008878 tetramer interface; other site 272563008879 Sporulation related domain; Region: SPOR; pfam05036 272563008880 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 272563008881 active site 272563008882 catalytic site [active] 272563008883 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 272563008884 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272563008885 NodB motif; other site 272563008886 active site 272563008887 catalytic site [active] 272563008888 Cd binding site [ion binding]; other site 272563008889 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 272563008890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563008891 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 272563008892 dimerization interface [polypeptide binding]; other site 272563008893 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 272563008894 dimer interface [polypeptide binding]; other site 272563008895 phosphorylation site [posttranslational modification] 272563008896 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 272563008897 ATP binding site [chemical binding]; other site 272563008898 Mg2+ binding site [ion binding]; other site 272563008899 G-X-G motif; other site 272563008900 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563008901 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 272563008902 active site 272563008903 phosphorylation site [posttranslational modification] 272563008904 intermolecular recognition site; other site 272563008905 dimerization interface [polypeptide binding]; other site 272563008906 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 272563008907 DNA binding site [nucleotide binding] 272563008908 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 272563008909 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272563008910 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 272563008911 NodB motif; other site 272563008912 putative active site [active] 272563008913 putative catalytic site [active] 272563008914 putative Zn binding site [ion binding]; other site 272563008915 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 272563008916 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 272563008917 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl19139 272563008918 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 272563008919 dimer interface [polypeptide binding]; other site 272563008920 active site 272563008921 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272563008922 folate binding site [chemical binding]; other site 272563008923 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 272563008924 Uncharacterized conserved protein [Function unknown]; Region: COG2966 272563008925 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 272563008926 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 272563008927 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 272563008928 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; cd10148 272563008929 putative homodimer interface [polypeptide binding]; other site 272563008930 putative homotetramer interface [polypeptide binding]; other site 272563008931 putative allosteric switch controlling residues; other site 272563008932 putative metal binding site [ion binding]; other site 272563008933 putative homodimer-homodimer interface [polypeptide binding]; other site 272563008934 PAS domain; Region: PAS; smart00091 272563008935 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 272563008936 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563008937 Walker A motif; other site 272563008938 ATP binding site [chemical binding]; other site 272563008939 Walker B motif; other site 272563008940 arginine finger; other site 272563008941 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 272563008942 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 272563008943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563008944 homodimer interface [polypeptide binding]; other site 272563008945 catalytic residue [active] 272563008946 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 272563008947 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272563008948 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 272563008949 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008950 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008951 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563008952 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563008953 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563008954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563008955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563008956 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 272563008957 dimerization interface [polypeptide binding]; other site 272563008958 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_6; cd07584 272563008959 putative active site [active] 272563008960 catalytic triad [active] 272563008961 putative dimer interface [polypeptide binding]; other site 272563008962 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 272563008963 Na binding site [ion binding]; other site 272563008964 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272563008965 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 272563008966 dimer interface [polypeptide binding]; other site 272563008967 anticodon binding site; other site 272563008968 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 272563008969 homodimer interface [polypeptide binding]; other site 272563008970 motif 1; other site 272563008971 active site 272563008972 motif 2; other site 272563008973 GAD domain; Region: GAD; pfam02938 272563008974 motif 3; other site 272563008975 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 272563008976 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 272563008977 dimer interface [polypeptide binding]; other site 272563008978 motif 1; other site 272563008979 active site 272563008980 motif 2; other site 272563008981 motif 3; other site 272563008982 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 272563008983 anticodon binding site; other site 272563008984 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 272563008985 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 272563008986 FeS/SAM binding site; other site 272563008987 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272563008988 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 272563008989 putative active site [active] 272563008990 dimerization interface [polypeptide binding]; other site 272563008991 putative tRNAtyr binding site [nucleotide binding]; other site 272563008992 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272563008993 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272563008994 Zn2+ binding site [ion binding]; other site 272563008995 Mg2+ binding site [ion binding]; other site 272563008996 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272563008997 synthetase active site [active] 272563008998 NTP binding site [chemical binding]; other site 272563008999 metal binding site [ion binding]; metal-binding site 272563009000 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 272563009001 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272563009002 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563009003 active site 272563009004 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272563009005 DHH family; Region: DHH; pfam01368 272563009006 DHHA1 domain; Region: DHHA1; pfam02272 272563009007 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 272563009008 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 272563009009 active site 272563009010 ATP binding site [chemical binding]; other site 272563009011 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272563009012 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 272563009013 trimer interface [polypeptide binding]; other site 272563009014 putative metal binding site [ion binding]; other site 272563009015 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 272563009016 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 272563009017 FeS/SAM binding site; other site 272563009018 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 272563009019 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 272563009020 Accessory gene regulator B; Region: AgrB; pfam04647 272563009021 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563009022 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563009023 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563009024 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563009025 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563009026 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 272563009027 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272563009028 metal binding site [ion binding]; metal-binding site 272563009029 nucleotidyl binding site; other site 272563009030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563009031 metal binding site [ion binding]; metal-binding site 272563009032 active site 272563009033 I-site; other site 272563009034 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 272563009035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563009036 metal binding site [ion binding]; metal-binding site 272563009037 active site 272563009038 I-site; other site 272563009039 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 272563009040 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 272563009041 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 272563009042 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 272563009043 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 272563009044 dimerization domain swap beta strand [polypeptide binding]; other site 272563009045 regulatory protein interface [polypeptide binding]; other site 272563009046 active site 272563009047 regulatory phosphorylation site [posttranslational modification]; other site 272563009048 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 272563009049 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 272563009050 active site 272563009051 nucleophile elbow; other site 272563009052 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 272563009053 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 272563009054 S-adenosylmethionine binding site [chemical binding]; other site 272563009055 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 272563009056 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 272563009057 Transcriptional regulator; Region: Rrf2; cl17282 272563009058 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272563009059 nucleotidyl binding site; other site 272563009060 metal binding site [ion binding]; metal-binding site 272563009061 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 272563009062 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272563009063 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 272563009064 active site 272563009065 metal binding site [ion binding]; metal-binding site 272563009066 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 272563009067 active site 272563009068 dimer interface [polypeptide binding]; other site 272563009069 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 272563009070 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 272563009071 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 272563009072 active site 272563009073 motif I; other site 272563009074 motif II; other site 272563009075 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563009076 Transcriptional regulator [Transcription]; Region: LytR; COG1316 272563009077 Transcriptional regulator [Transcription]; Region: LytR; COG1316 272563009078 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 272563009079 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009080 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009081 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009082 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272563009083 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563009084 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272563009085 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563009086 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 272563009087 CoA binding domain; Region: CoA_binding; cl17356 272563009088 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 272563009089 NAD(P) binding site [chemical binding]; other site 272563009090 homodimer interface [polypeptide binding]; other site 272563009091 substrate binding site [chemical binding]; other site 272563009092 active site 272563009093 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 272563009094 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272563009095 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 272563009096 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 272563009097 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272563009098 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 272563009099 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272563009100 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 272563009101 active site 272563009102 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272563009103 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 272563009104 active site 272563009105 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272563009106 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 272563009107 active site 272563009108 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; cl19502 272563009109 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 272563009110 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272563009111 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 272563009112 active site 272563009113 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 272563009114 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; cl19952 272563009115 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 272563009116 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272563009117 Substrate binding site; other site 272563009118 Cupin domain; Region: Cupin_2; cl17218 272563009119 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 272563009120 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 272563009121 active site 272563009122 substrate binding site [chemical binding]; other site 272563009123 metal binding site [ion binding]; metal-binding site 272563009124 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 272563009125 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 272563009126 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009127 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009128 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009129 Bacterial sugar transferase; Region: Bac_transf; pfam02397 272563009130 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009131 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009132 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009133 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272563009134 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 272563009135 active site 272563009136 metal binding site [ion binding]; metal-binding site 272563009137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 272563009138 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009139 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009140 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009141 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 272563009142 active site 272563009143 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009144 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009145 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009146 GtrA-like protein; Region: GtrA; pfam04138 272563009147 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009148 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009149 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009150 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 272563009151 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009152 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009153 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009154 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272563009155 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 272563009156 ATP binding site [chemical binding]; other site 272563009157 putative Mg++ binding site [ion binding]; other site 272563009158 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 272563009159 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 272563009160 nucleotide binding region [chemical binding]; other site 272563009161 ATP-binding site [chemical binding]; other site 272563009162 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 272563009163 Low molecular weight S layer protein N terminal; Region: LMWSLP_N; pfam12211 272563009164 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009165 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009166 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009167 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009168 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009169 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009170 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 272563009171 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 272563009172 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009173 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009174 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009175 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 272563009176 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 272563009177 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009178 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009179 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009180 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 272563009181 Interdomain contacts; other site 272563009182 Cytokine receptor motif; other site 272563009183 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 272563009184 Peptidase M60-like family; Region: M60-like; cl19940 272563009185 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 272563009186 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009187 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009188 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009189 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 272563009190 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009191 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009192 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563009193 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 272563009194 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 272563009195 Preprotein translocase subunit; Region: YajC; pfam02699 272563009196 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 272563009197 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 272563009198 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272563009199 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272563009200 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 272563009201 Walker A motif; other site 272563009202 ATP binding site [chemical binding]; other site 272563009203 Walker B motif; other site 272563009204 arginine finger; other site 272563009205 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272563009206 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272563009207 RuvA N terminal domain; Region: RuvA_N; pfam01330 272563009208 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 272563009209 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 272563009210 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 272563009211 active site 272563009212 putative DNA-binding cleft [nucleotide binding]; other site 272563009213 dimer interface [polypeptide binding]; other site 272563009214 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 272563009215 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 272563009216 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 272563009217 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 272563009218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 272563009219 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 272563009220 GntP family permease; Region: GntP_permease; pfam02447 272563009221 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 272563009222 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 272563009223 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 272563009224 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272563009225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563009226 DNA-binding site [nucleotide binding]; DNA binding site 272563009227 FCD domain; Region: FCD; pfam07729 272563009228 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 272563009229 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563009230 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563009231 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 272563009232 Walker A/P-loop; other site 272563009233 ATP binding site [chemical binding]; other site 272563009234 Q-loop/lid; other site 272563009235 ABC transporter signature motif; other site 272563009236 Walker B; other site 272563009237 D-loop; other site 272563009238 H-loop/switch region; other site 272563009239 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272563009240 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 272563009241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563009242 Walker A/P-loop; other site 272563009243 ATP binding site [chemical binding]; other site 272563009244 Q-loop/lid; other site 272563009245 ABC transporter signature motif; other site 272563009246 Walker B; other site 272563009247 D-loop; other site 272563009248 H-loop/switch region; other site 272563009249 RibD C-terminal domain; Region: RibD_C; cl17279 272563009250 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 272563009251 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 272563009252 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272563009253 catalytic residue [active] 272563009254 hypothetical protein; Provisional; Region: PRK10519 272563009255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 272563009256 Nucleoside recognition; Region: Gate; pfam07670 272563009257 glutamate carboxypeptidase; Reviewed; Region: PRK06133 272563009258 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 272563009259 metal binding site [ion binding]; metal-binding site 272563009260 dimer interface [polypeptide binding]; other site 272563009261 Evidence 7 : Gene remnant; PubMedId : 19781061 272563009262 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 272563009263 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 272563009264 phosphate binding site [ion binding]; other site 272563009265 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563009266 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; cl17220 272563009267 aspartate aminotransferase; Provisional; Region: PRK06836 272563009268 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 272563009269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563009270 homodimer interface [polypeptide binding]; other site 272563009271 catalytic residue [active] 272563009272 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272563009273 EamA-like transporter family; Region: EamA; pfam00892 272563009274 EamA-like transporter family; Region: EamA; pfam00892 272563009275 Collagen binding domain; Region: Collagen_bind; pfam05737 272563009276 Collagen binding domain; Region: Collagen_bind; pfam05737 272563009277 Cna protein B-type domain; Region: Cna_B; pfam05738 272563009278 Domain of unknown function (DUF4628); Region: DUF4628; pfam15429 272563009279 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272563009280 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 272563009281 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272563009282 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563009283 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272563009284 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 272563009285 Soluble P-type ATPase [General function prediction only]; Region: COG4087 272563009286 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272563009287 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 272563009288 dimer interface [polypeptide binding]; other site 272563009289 active site 272563009290 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272563009291 folate binding site [chemical binding]; other site 272563009292 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 272563009293 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563009294 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272563009295 metal binding site [ion binding]; metal-binding site 272563009296 dimer interface [polypeptide binding]; other site 272563009297 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 272563009298 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272563009299 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 272563009300 active site 272563009301 phosphorylation site [posttranslational modification] 272563009302 intermolecular recognition site; other site 272563009303 dimerization interface [polypeptide binding]; other site 272563009304 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563009305 Cupin domain; Region: Cupin_2; pfam07883 272563009306 Histidine kinase; Region: His_kinase; pfam06580 272563009307 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 272563009308 ATP binding site [chemical binding]; other site 272563009309 Mg2+ binding site [ion binding]; other site 272563009310 G-X-G motif; other site 272563009311 seryl-tRNA synthetase; Provisional; Region: PRK05431 272563009312 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272563009313 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 272563009314 dimer interface [polypeptide binding]; other site 272563009315 active site 272563009316 motif 1; other site 272563009317 motif 2; other site 272563009318 motif 3; other site 272563009319 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 272563009320 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 272563009321 active site 272563009322 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 272563009323 putative active site [active] 272563009324 catalytic triad [active] 272563009325 putative dimer interface [polypeptide binding]; other site 272563009326 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 272563009327 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 272563009328 NADP binding site [chemical binding]; other site 272563009329 dimer interface [polypeptide binding]; other site 272563009330 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563009331 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 272563009332 dimerization interface [polypeptide binding]; other site 272563009333 putative DNA binding site [nucleotide binding]; other site 272563009334 putative Zn2+ binding site [ion binding]; other site 272563009335 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; cl17220 272563009336 Rubrerythrin [Energy production and conversion]; Region: COG1592 272563009337 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 272563009338 binuclear metal center [ion binding]; other site 272563009339 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 272563009340 iron binding site [ion binding]; other site 272563009341 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 272563009342 Protein of unknown function (DUF342); Region: DUF342; cl19219 272563009343 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 272563009344 phosphonoacetaldehyde hydrolase; Region: phosphonatase; TIGR01422 272563009345 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 272563009346 motif II; other site 272563009347 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; cl18945 272563009348 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563009349 catalytic residue [active] 272563009350 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272563009351 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 272563009352 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 272563009353 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272563009354 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 272563009355 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 272563009356 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 272563009357 acyl-activating enzyme (AAE) consensus motif; other site 272563009358 AMP binding site [chemical binding]; other site 272563009359 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 272563009360 DltD central region; Region: DltD_M; pfam04918 272563009361 DltD C-terminal region; Region: DltD_C; pfam04914 272563009362 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272563009363 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 272563009364 Protein of unknown function (DUF1113); Region: DUF1113; cl19877 272563009365 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563009366 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 272563009367 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 272563009368 motif II; other site 272563009369 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272563009370 Domain of unknown function DUF21; Region: DUF21; pfam01595 272563009371 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 272563009372 Transporter associated domain; Region: CorC_HlyC; smart01091 272563009373 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 272563009374 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 272563009375 active site 272563009376 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 272563009377 active site 272563009378 PAS domain; Region: PAS; smart00091 272563009379 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 272563009380 Walker A motif; other site 272563009381 ATP binding site [chemical binding]; other site 272563009382 Walker B motif; other site 272563009383 arginine finger; other site 272563009384 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563009385 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272563009386 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 272563009387 Ferritin-like domain; Region: Ferritin; pfam00210 272563009388 dinuclear metal binding motif [ion binding]; other site 272563009389 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 272563009390 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 272563009391 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 272563009392 FAD dependent oxidoreductase; Region: DAO; pfam01266 272563009393 Propionate catabolism activator; Region: PrpR_N; pfam06506 272563009394 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272563009395 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 272563009396 putative active site [active] 272563009397 heme pocket [chemical binding]; other site 272563009398 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 272563009399 Walker A motif; other site 272563009400 ATP binding site [chemical binding]; other site 272563009401 Walker B motif; other site 272563009402 arginine finger; other site 272563009403 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 272563009404 2-keto-3-deoxygluconate permease; Provisional; Region: PRK12460 272563009405 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 272563009406 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 272563009407 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272563009408 nucleotidyl binding site; other site 272563009409 metal binding site [ion binding]; metal-binding site 272563009410 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 272563009411 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563009412 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563009413 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272563009414 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272563009415 Walker A/P-loop; other site 272563009416 ATP binding site [chemical binding]; other site 272563009417 Q-loop/lid; other site 272563009418 ABC transporter signature motif; other site 272563009419 Walker B; other site 272563009420 D-loop; other site 272563009421 H-loop/switch region; other site 272563009422 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 272563009423 ABC-ATPase subunit interface; other site 272563009424 dimer interface [polypeptide binding]; other site 272563009425 putative PBP binding regions; other site 272563009426 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 272563009427 ABC-ATPase subunit interface; other site 272563009428 dimer interface [polypeptide binding]; other site 272563009429 putative PBP binding regions; other site 272563009430 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272563009431 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 272563009432 intersubunit interface [polypeptide binding]; other site 272563009433 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 272563009434 methionine cluster; other site 272563009435 active site 272563009436 phosphorylation site [posttranslational modification] 272563009437 metal binding site [ion binding]; metal-binding site 272563009438 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 272563009439 putative active site [active] 272563009440 YdjC motif; other site 272563009441 Mg binding site [ion binding]; other site 272563009442 putative homodimer interface [polypeptide binding]; other site 272563009443 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272563009444 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 272563009445 NAD binding site [chemical binding]; other site 272563009446 sugar binding site [chemical binding]; other site 272563009447 divalent metal binding site [ion binding]; other site 272563009448 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563009449 dimer interface [polypeptide binding]; other site 272563009450 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563009451 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 272563009452 active site 272563009453 P-loop; other site 272563009454 phosphorylation site [posttranslational modification] 272563009455 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272563009456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563009457 DNA-binding site [nucleotide binding]; DNA binding site 272563009458 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 272563009459 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563009460 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 272563009461 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563009462 metal binding site [ion binding]; metal-binding site 272563009463 active site 272563009464 I-site; other site 272563009465 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 272563009466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563009467 dimer interface [polypeptide binding]; other site 272563009468 conserved gate region; other site 272563009469 putative PBP binding loops; other site 272563009470 ABC-ATPase subunit interface; other site 272563009471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563009472 dimer interface [polypeptide binding]; other site 272563009473 conserved gate region; other site 272563009474 putative PBP binding loops; other site 272563009475 ABC-ATPase subunit interface; other site 272563009476 Evidence 7 : Gene remnant ; This CDS is disrupted by a prophage insertion 272563009477 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 272563009478 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 272563009479 active site 272563009480 metal binding site [ion binding]; metal-binding site 272563009481 Haemolysin XhlA; Region: XhlA; pfam10779 272563009482 Glycine rich protein; Region: Gly_rich; pfam12810 272563009483 Mer2; Region: Mer2; pfam09074 272563009484 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 272563009485 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 272563009486 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 272563009487 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 272563009488 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 272563009489 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 272563009490 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 272563009491 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563009492 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272563009493 Phage-related minor tail protein [Function unknown]; Region: COG5281 272563009494 tape measure domain; Region: tape_meas_nterm; TIGR02675 272563009495 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 272563009496 Phage XkdN-like protein; Region: XkdN; pfam08890 272563009497 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 272563009498 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 272563009499 Bacteriophage HK97-gp10, putative tail-component; Region: HK97-gp10_like; pfam04883 272563009500 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 272563009501 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 272563009502 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 272563009503 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 272563009504 Phage terminase large subunit; Region: Terminase_3; cl12054 272563009505 Terminase-like family; Region: Terminase_6; pfam03237 272563009506 Uncharacterized conserved protein [Function unknown]; Region: COG5484 272563009507 Helix-turn-helix domain; Region: HTH_28; pfam13518 272563009508 PSP1 C-terminal conserved region; Region: PSP1; cl00770 272563009509 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563009510 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 272563009511 non-specific DNA binding site [nucleotide binding]; other site 272563009512 salt bridge; other site 272563009513 sequence-specific DNA binding site [nucleotide binding]; other site 272563009514 Domain of unknown function (DUF955); Region: DUF955; cl01076 272563009515 AntA/AntB antirepressor; Region: AntA; pfam08346 272563009516 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 272563009517 RF-1 domain; Region: RF-1; cl17422 272563009518 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 272563009519 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 272563009520 NUMOD1 domain; Region: NUMOD1; pfam07453 272563009521 Microtubule associated protein (MAP65/ASE1 family); Region: MAP65_ASE1; pfam03999 272563009522 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 272563009523 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 272563009524 dimer interface [polypeptide binding]; other site 272563009525 ssDNA binding site [nucleotide binding]; other site 272563009526 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563009527 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 272563009528 ERF superfamily; Region: ERF; pfam04404 272563009529 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 272563009530 ORF6N domain; Region: ORF6N; pfam10543 272563009531 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 272563009532 non-specific DNA binding site [nucleotide binding]; other site 272563009533 salt bridge; other site 272563009534 sequence-specific DNA binding site [nucleotide binding]; other site 272563009535 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563009536 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 272563009537 non-specific DNA binding site [nucleotide binding]; other site 272563009538 salt bridge; other site 272563009539 sequence-specific DNA binding site [nucleotide binding]; other site 272563009540 Domain of unknown function (DUF955); Region: DUF955; pfam06114 272563009541 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272563009542 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272563009543 catalytic residues [active] 272563009544 catalytic nucleophile [active] 272563009545 Recombinase; Region: Recombinase; pfam07508 272563009546 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272563009547 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272563009548 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 272563009549 V-type ATP synthase subunit B; Provisional; Region: PRK04196 272563009550 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272563009551 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 272563009552 Walker A motif homologous position; other site 272563009553 Walker B motif; other site 272563009554 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272563009555 V-type ATP synthase subunit A; Provisional; Region: PRK04192 272563009556 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272563009557 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 272563009558 Walker A motif/ATP binding site; other site 272563009559 Walker B motif; other site 272563009560 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272563009561 V-type ATP synthase subunit F; Provisional; Region: PRK01395 272563009562 V-type ATP synthase subunit C; Provisional; Region: PRK01198 272563009563 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 272563009564 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 272563009565 V-type ATP synthase subunit K; Validated; Region: PRK06558 272563009566 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 272563009567 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 272563009568 V-type ATP synthase subunit I; Validated; Region: PRK05771 272563009569 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 272563009570 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 272563009571 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 272563009572 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272563009573 B3/4 domain; Region: B3_4; cl19243 272563009574 Cache domain; Region: Cache_1; pfam02743 272563009575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563009576 metal binding site [ion binding]; metal-binding site 272563009577 active site 272563009578 I-site; other site 272563009579 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 272563009580 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 272563009581 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 272563009582 putative catalytic cysteine [active] 272563009583 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 272563009584 putative active site [active] 272563009585 metal binding site [ion binding]; metal-binding site 272563009586 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 272563009587 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 272563009588 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 272563009589 NAD(P) binding pocket [chemical binding]; other site 272563009590 acyl-CoA synthetase; Validated; Region: PRK07638 272563009591 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 272563009592 AMP binding site [chemical binding]; other site 272563009593 active site 272563009594 acyl-activating enzyme (AAE) consensus motif; other site 272563009595 CoA binding site [chemical binding]; other site 272563009596 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 272563009597 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 272563009598 dimer interface [polypeptide binding]; other site 272563009599 active site 272563009600 BioY family; Region: BioY; pfam02632 272563009601 Evidence 7 : Gene remnant 272563009602 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272563009603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563009604 Coenzyme A binding pocket [chemical binding]; other site 272563009605 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 272563009606 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 272563009607 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 272563009608 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 272563009609 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 272563009610 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 272563009611 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-B; cd09658 272563009612 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09687 272563009613 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 272563009614 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl18979 272563009615 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 272563009616 WYL domain; Region: WYL; pfam13280 272563009617 FtsX-like permease family; Region: FtsX; pfam02687 272563009618 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563009619 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563009620 Walker A/P-loop; other site 272563009621 ATP binding site [chemical binding]; other site 272563009622 Q-loop/lid; other site 272563009623 ABC transporter signature motif; other site 272563009624 Walker B; other site 272563009625 D-loop; other site 272563009626 H-loop/switch region; other site 272563009627 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 272563009628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563009629 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 272563009630 dimer interface [polypeptide binding]; other site 272563009631 phosphorylation site [posttranslational modification] 272563009632 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 272563009633 ATP binding site [chemical binding]; other site 272563009634 Mg2+ binding site [ion binding]; other site 272563009635 G-X-G motif; other site 272563009636 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563009637 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 272563009638 active site 272563009639 phosphorylation site [posttranslational modification] 272563009640 intermolecular recognition site; other site 272563009641 dimerization interface [polypeptide binding]; other site 272563009642 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 272563009643 DNA binding site [nucleotide binding] 272563009644 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272563009645 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 272563009646 substrate binding pocket [chemical binding]; other site 272563009647 membrane-bound complex binding site; other site 272563009648 hinge residues; other site 272563009649 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272563009650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563009651 Walker A/P-loop; other site 272563009652 ATP binding site [chemical binding]; other site 272563009653 Q-loop/lid; other site 272563009654 ABC transporter signature motif; other site 272563009655 Walker B; other site 272563009656 D-loop; other site 272563009657 H-loop/switch region; other site 272563009658 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272563009659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563009660 dimer interface [polypeptide binding]; other site 272563009661 conserved gate region; other site 272563009662 putative PBP binding loops; other site 272563009663 ABC-ATPase subunit interface; other site 272563009664 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272563009665 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 272563009666 dimer interface [polypeptide binding]; other site 272563009667 putative radical transfer pathway; other site 272563009668 diiron center [ion binding]; other site 272563009669 tyrosyl radical; other site 272563009670 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 272563009671 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 272563009672 Class I ribonucleotide reductase; Region: RNR_I; cd01679 272563009673 active site 272563009674 dimer interface [polypeptide binding]; other site 272563009675 catalytic residues [active] 272563009676 effector binding site; other site 272563009677 R2 peptide binding site; other site 272563009678 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272563009679 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272563009680 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272563009681 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272563009682 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272563009683 Walker A/P-loop; other site 272563009684 ATP binding site [chemical binding]; other site 272563009685 Q-loop/lid; other site 272563009686 ABC transporter signature motif; other site 272563009687 Walker B; other site 272563009688 D-loop; other site 272563009689 H-loop/switch region; other site 272563009690 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 272563009691 ABC-ATPase subunit interface; other site 272563009692 dimer interface [polypeptide binding]; other site 272563009693 putative PBP binding regions; other site 272563009694 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272563009695 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 272563009696 intersubunit interface [polypeptide binding]; other site 272563009697 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 272563009698 inhibitor site; inhibition site 272563009699 active site 272563009700 dimer interface [polypeptide binding]; other site 272563009701 catalytic residue [active] 272563009702 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 272563009703 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 272563009704 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 272563009705 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 272563009706 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 272563009707 Transcriptional regulator [Transcription]; Region: IclR; COG1414 272563009708 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 272563009709 Bacterial transcriptional regulator; Region: IclR; pfam01614 272563009710 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 272563009711 dimer interface [polypeptide binding]; other site 272563009712 active site 272563009713 metal binding site [ion binding]; metal-binding site 272563009714 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563009715 Bacterial SH3 domain; Region: SH3_3; pfam08239 272563009716 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272563009717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272563009718 Evidence 7 : Gene remnant ; this CDS lacks an appropriate start codon 272563009719 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 272563009720 Squalene epoxidase; Region: SE; cl17314 272563009721 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272563009722 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 272563009723 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 272563009724 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 272563009725 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 272563009726 catalytic residues [active] 272563009727 Predicted transcriptional regulators [Transcription]; Region: COG1733 272563009728 alpha-mannosidase; Provisional; Region: PRK09819 272563009729 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 272563009730 active site 272563009731 metal binding site [ion binding]; metal-binding site 272563009732 catalytic site [active] 272563009733 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 272563009734 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 272563009735 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 272563009736 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 272563009737 active site 272563009738 P-loop; other site 272563009739 phosphorylation site [posttranslational modification] 272563009740 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 272563009741 active site 272563009742 phosphorylation site [posttranslational modification] 272563009743 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563009744 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563009745 HTH domain; Region: HTH_11; pfam08279 272563009746 PRD domain; Region: PRD; pfam00874 272563009747 PRD domain; Region: PRD; pfam00874 272563009748 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 272563009749 active site 272563009750 P-loop; other site 272563009751 phosphorylation site [posttranslational modification] 272563009752 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 272563009753 active site 272563009754 phosphorylation site [posttranslational modification] 272563009755 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 272563009756 Sugar transport protein; Region: Sugar_transport; cl19288 272563009757 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 272563009758 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 272563009759 gating phenylalanine in ion channel; other site 272563009760 Evidence 7 : Gene remnant; PubMedId : 19781061 ; this CDS appears to have a frameshift around codon 229. 272563009761 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 272563009762 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 272563009763 Right handed beta helix region; Region: Beta_helix; pfam13229 272563009764 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 272563009765 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 272563009766 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563009767 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272563009768 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 272563009769 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 272563009770 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563009771 HPr interaction site; other site 272563009772 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563009773 active site 272563009774 phosphorylation site [posttranslational modification] 272563009775 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 272563009776 putative active site [active] 272563009777 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 272563009778 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 272563009779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563009780 homodimer interface [polypeptide binding]; other site 272563009781 catalytic residue [active] 272563009782 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 272563009783 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563009784 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 272563009785 active site turn [active] 272563009786 phosphorylation site [posttranslational modification] 272563009787 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563009788 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563009789 PRD domain; Region: PRD; pfam00874 272563009790 PRD domain; Region: PRD; pfam00874 272563009791 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272563009792 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563009793 catalytic residue [active] 272563009794 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 272563009795 catalytic residues [active] 272563009796 Predicted transcriptional regulators [Transcription]; Region: COG1378 272563009797 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 272563009798 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 272563009799 C-terminal domain interface [polypeptide binding]; other site 272563009800 sugar binding site [chemical binding]; other site 272563009801 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 272563009802 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 272563009803 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 272563009804 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 272563009805 putative substrate translocation pore; other site 272563009806 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 272563009807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 272563009808 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 272563009809 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 272563009810 metal ion-dependent adhesion site (MIDAS); other site 272563009811 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563009812 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 272563009813 Walker A motif; other site 272563009814 ATP binding site [chemical binding]; other site 272563009815 Walker B motif; other site 272563009816 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 272563009817 Type II restriction endonuclease (RE_Alw26IDE); Region: RE_Alw26IDE; cl19566 272563009818 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 272563009819 Putative lysophospholipase; Region: Hydrolase_4; cl19140 272563009820 Predicted membrane protein [Function unknown]; Region: COG4129 272563009821 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 272563009822 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 272563009823 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272563009824 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563009825 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563009826 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 272563009827 putative active site [active] 272563009828 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 272563009829 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563009830 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 272563009831 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 272563009832 putative active site [active] 272563009833 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 272563009834 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563009835 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 272563009836 active site 272563009837 P-loop; other site 272563009838 phosphorylation site [posttranslational modification] 272563009839 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 272563009840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563009841 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 272563009842 ATP binding site [chemical binding]; other site 272563009843 Mg2+ binding site [ion binding]; other site 272563009844 G-X-G motif; other site 272563009845 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563009846 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 272563009847 active site 272563009848 phosphorylation site [posttranslational modification] 272563009849 intermolecular recognition site; other site 272563009850 dimerization interface [polypeptide binding]; other site 272563009851 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 272563009852 DNA binding site [nucleotide binding] 272563009853 FtsX-like permease family; Region: FtsX; pfam02687 272563009854 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563009855 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563009856 Walker A/P-loop; other site 272563009857 ATP binding site [chemical binding]; other site 272563009858 Q-loop/lid; other site 272563009859 ABC transporter signature motif; other site 272563009860 Walker B; other site 272563009861 D-loop; other site 272563009862 H-loop/switch region; other site 272563009863 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 272563009864 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272563009865 putative substrate translocation pore; other site 272563009866 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 272563009867 HPr interaction site; other site 272563009868 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563009869 active site 272563009870 phosphorylation site [posttranslational modification] 272563009871 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272563009872 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 272563009873 NAD binding site [chemical binding]; other site 272563009874 sugar binding site [chemical binding]; other site 272563009875 divalent metal binding site [ion binding]; other site 272563009876 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563009877 dimer interface [polypeptide binding]; other site 272563009878 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 272563009879 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563009880 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 272563009881 active site turn [active] 272563009882 phosphorylation site [posttranslational modification] 272563009883 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563009884 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563009885 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 272563009886 putative active site [active] 272563009887 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272563009888 Active site serine [active] 272563009889 xylose isomerase; Provisional; Region: PRK05474 272563009890 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 272563009891 N- and C-terminal domain interface [polypeptide binding]; other site 272563009892 D-xylulose kinase; Region: XylB; TIGR01312 272563009893 active site 272563009894 MgATP binding site [chemical binding]; other site 272563009895 catalytic site [active] 272563009896 metal binding site [ion binding]; metal-binding site 272563009897 xylulose binding site [chemical binding]; other site 272563009898 homodimer interface [polypeptide binding]; other site 272563009899 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563009900 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; cl17220 272563009901 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272563009902 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563009903 nucleotide binding site [chemical binding]; other site 272563009904 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 272563009905 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 272563009906 active pocket/dimerization site; other site 272563009907 active site 272563009908 phosphorylation site [posttranslational modification] 272563009909 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 272563009910 active site 272563009911 phosphorylation site [posttranslational modification] 272563009912 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 272563009913 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 272563009914 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 272563009915 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 272563009916 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 272563009917 putative active site [active] 272563009918 putative catalytic site [active] 272563009919 Protein of unknown function (DUF523); Region: DUF523; cl00733 272563009920 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 272563009921 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 272563009922 intersubunit interface [polypeptide binding]; other site 272563009923 active site 272563009924 zinc binding site [ion binding]; other site 272563009925 Na+ binding site [ion binding]; other site 272563009926 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 272563009927 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 272563009928 active site 272563009929 P-loop; other site 272563009930 phosphorylation site [posttranslational modification] 272563009931 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 272563009932 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 272563009933 active site 272563009934 phosphorylation site [posttranslational modification] 272563009935 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 272563009936 putative substrate binding site [chemical binding]; other site 272563009937 putative ATP binding site [chemical binding]; other site 272563009938 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563009939 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563009940 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 272563009941 putative active site [active] 272563009942 Predicted membrane protein [Function unknown]; Region: COG2364 272563009943 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 272563009944 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563009945 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 272563009946 active site 272563009947 methionine cluster; other site 272563009948 phosphorylation site [posttranslational modification] 272563009949 metal binding site [ion binding]; metal-binding site 272563009950 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563009951 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 272563009952 active site 272563009953 P-loop; other site 272563009954 phosphorylation site [posttranslational modification] 272563009955 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563009956 HTH domain; Region: HTH_11; pfam08279 272563009957 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563009958 PRD domain; Region: PRD; pfam00874 272563009959 PRD domain; Region: PRD; pfam00874 272563009960 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 272563009961 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563009962 active site 272563009963 phosphorylation site [posttranslational modification] 272563009964 Glycerate kinase family; Region: Gly_kinase; cl00841 272563009965 alpha-mannosidase; Provisional; Region: PRK09819 272563009966 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 272563009967 active site 272563009968 metal binding site [ion binding]; metal-binding site 272563009969 catalytic site [active] 272563009970 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 272563009971 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 272563009972 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 272563009973 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 272563009974 active site 272563009975 phosphorylation site [posttranslational modification] 272563009976 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 272563009977 active site 272563009978 P-loop; other site 272563009979 phosphorylation site [posttranslational modification] 272563009980 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 272563009981 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272563009982 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272563009983 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 272563009984 putative active site [active] 272563009985 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_1; cd10805 272563009986 putative active site [active] 272563009987 YdjC motif; other site 272563009988 Mg binding site [ion binding]; other site 272563009989 putative homodimer interface [polypeptide binding]; other site 272563009990 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563009991 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 272563009992 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 272563009993 active site turn [active] 272563009994 phosphorylation site [posttranslational modification] 272563009995 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272563009996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563009997 DNA-binding site [nucleotide binding]; DNA binding site 272563009998 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 272563009999 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 272563010000 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 272563010001 Ca binding site [ion binding]; other site 272563010002 active site 272563010003 catalytic site [active] 272563010004 amino acid transporter; Region: 2A0306; TIGR00909 272563010005 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 272563010006 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 272563010007 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 272563010008 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 272563010009 catalytic triad [active] 272563010010 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563010011 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 272563010012 Walker A motif; other site 272563010013 ATP binding site [chemical binding]; other site 272563010014 Walker B motif; other site 272563010015 arginine finger; other site 272563010016 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 272563010017 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563010018 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 272563010019 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563010020 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272563010021 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 272563010022 active site turn [active] 272563010023 phosphorylation site [posttranslational modification] 272563010024 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563010025 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563010026 HPr interaction site; other site 272563010027 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563010028 active site 272563010029 phosphorylation site [posttranslational modification] 272563010030 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563010031 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563010032 PRD domain; Region: PRD; pfam00874 272563010033 PRD domain; Region: PRD; pfam00874 272563010034 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 272563010035 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 272563010036 metal binding site [ion binding]; metal-binding site 272563010037 Predicted membrane protein [Function unknown]; Region: COG1288 272563010038 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563010039 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 272563010040 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 272563010041 active site turn [active] 272563010042 phosphorylation site [posttranslational modification] 272563010043 dipeptidase PepV; Reviewed; Region: PRK07318 272563010044 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 272563010045 active site 272563010046 metal binding site [ion binding]; metal-binding site 272563010047 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563010048 HPr interaction site; other site 272563010049 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563010050 active site 272563010051 phosphorylation site [posttranslational modification] 272563010052 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 272563010053 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272563010054 active site 272563010055 motif I; other site 272563010056 motif II; other site 272563010057 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 272563010058 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 272563010059 putative active site [active] 272563010060 metal binding site [ion binding]; metal-binding site 272563010061 Class I aldolases; Region: Aldolase_Class_I; cl17187 272563010062 catalytic residue [active] 272563010063 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563010064 HTH domain; Region: HTH_11; pfam08279 272563010065 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563010066 PRD domain; Region: PRD; pfam00874 272563010067 PRD domain; Region: PRD; pfam00874 272563010068 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 272563010069 active site 272563010070 P-loop; other site 272563010071 phosphorylation site [posttranslational modification] 272563010072 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272563010073 Domain of unknown function (DUF373); Region: DUF373; cl12079 272563010074 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 272563010075 phosphate binding site [ion binding]; other site 272563010076 6-phosphofructokinase; Provisional; Region: PRK14072 272563010077 active site 272563010078 ADP/pyrophosphate binding site [chemical binding]; other site 272563010079 dimerization interface [polypeptide binding]; other site 272563010080 allosteric effector site; other site 272563010081 fructose-1,6-bisphosphate binding site; other site 272563010082 Predicted transcriptional regulator [Transcription]; Region: COG3355 272563010083 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563010084 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272563010085 metal binding site [ion binding]; metal-binding site 272563010086 dimer interface [polypeptide binding]; other site 272563010087 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 272563010088 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563010089 putative metal binding site [ion binding]; other site 272563010090 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 272563010091 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563010092 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272563010093 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 272563010094 active site turn [active] 272563010095 phosphorylation site [posttranslational modification] 272563010096 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563010097 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563010098 HPr interaction site; other site 272563010099 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563010100 active site 272563010101 phosphorylation site [posttranslational modification] 272563010102 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563010103 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563010104 PRD domain; Region: PRD; pfam00874 272563010105 PRD domain; Region: PRD; pfam00874 272563010106 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 272563010107 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 272563010108 glycosyltransferase, MGT family; Region: MGT; TIGR01426 272563010109 active site 272563010110 TDP-binding site; other site 272563010111 acceptor substrate-binding pocket; other site 272563010112 homodimer interface [polypeptide binding]; other site 272563010113 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563010114 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 272563010115 non-specific DNA binding site [nucleotide binding]; other site 272563010116 salt bridge; other site 272563010117 sequence-specific DNA binding site [nucleotide binding]; other site 272563010118 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 272563010119 Flavodoxin domain; Region: Flavodoxin_5; cl17428 272563010120 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563010121 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563010122 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 272563010123 dimerization interface [polypeptide binding]; other site 272563010124 putative DNA binding site [nucleotide binding]; other site 272563010125 putative Zn2+ binding site [ion binding]; other site 272563010126 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563010127 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 272563010128 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272563010129 FMN binding site [chemical binding]; other site 272563010130 dimer interface [polypeptide binding]; other site 272563010131 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563010132 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 272563010133 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272563010134 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 272563010135 active site turn [active] 272563010136 phosphorylation site [posttranslational modification] 272563010137 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563010138 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563010139 HPr interaction site; other site 272563010140 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563010141 active site 272563010142 phosphorylation site [posttranslational modification] 272563010143 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563010144 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563010145 PRD domain; Region: PRD; pfam00874 272563010146 PRD domain; Region: PRD; pfam00874 272563010147 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 272563010148 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 272563010149 active site turn [active] 272563010150 phosphorylation site [posttranslational modification] 272563010151 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563010152 beta-phosphoglucomutase; Region: bPGM; TIGR01990 272563010153 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 272563010154 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 272563010155 motif II; other site 272563010156 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 272563010157 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 272563010158 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 272563010159 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 272563010160 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563010161 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 272563010162 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 272563010163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563010164 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563010165 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563010166 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 272563010167 active site 272563010168 phosphorylation site [posttranslational modification] 272563010169 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563010170 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563010171 PRD domain; Region: PRD; pfam00874 272563010172 PRD domain; Region: PRD; pfam00874 272563010173 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 272563010174 active site 272563010175 P-loop; other site 272563010176 phosphorylation site [posttranslational modification] 272563010177 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 272563010178 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 272563010179 active site 272563010180 phosphorylation site [posttranslational modification] 272563010181 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 272563010182 active site 272563010183 P-loop; other site 272563010184 phosphorylation site [posttranslational modification] 272563010185 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 272563010186 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 272563010187 intersubunit interface [polypeptide binding]; other site 272563010188 active site 272563010189 zinc binding site [ion binding]; other site 272563010190 Na+ binding site [ion binding]; other site 272563010191 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 272563010192 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272563010193 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272563010194 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 272563010195 active site turn [active] 272563010196 phosphorylation site [posttranslational modification] 272563010197 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 272563010198 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 272563010199 HPr interaction site; other site 272563010200 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272563010201 active site 272563010202 phosphorylation site [posttranslational modification] 272563010203 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272563010204 CAT RNA binding domain; Region: CAT_RBD; smart01061 272563010205 PRD domain; Region: PRD; pfam00874 272563010206 PRD domain; Region: PRD; pfam00874 272563010207 Evidence 7 : Gene remnant; PubMedId : 15673505,15691969, 16547044, 17322187, 17890338,18708505,3972994 272563010208 Evidence 7 : Gene remnant 272563010209 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 272563010210 non-specific DNA binding site [nucleotide binding]; other site 272563010211 salt bridge; other site 272563010212 sequence-specific DNA binding site [nucleotide binding]; other site 272563010213 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 272563010214 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 272563010215 conserved cys residue [active] 272563010216 Predicted transcriptional regulator [Transcription]; Region: COG2378 272563010217 HTH domain; Region: HTH_11; pfam08279 272563010218 WYL domain; Region: WYL; pfam13280 272563010219 Plasmodium histidine-rich protein (HRPII/III); Region: Plasmodium_HRP; pfam05403 272563010220 Proline-rich; Region: Pro-rich; pfam15240 272563010221 Evidence 7 : Gene remnant; PubMedId : 16718604,11239768 ; This CDS contains an in-frame stop codon. 272563010222 Evidence 7 : Gene remnant 272563010223 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272563010224 cofactor binding site; other site 272563010225 DNA binding site [nucleotide binding] 272563010226 substrate interaction site [chemical binding]; other site 272563010227 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 272563010228 helicase superfamily c-terminal domain; Region: HELICc; smart00490 272563010229 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 272563010230 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 272563010231 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 272563010232 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563010233 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 272563010234 non-specific DNA binding site [nucleotide binding]; other site 272563010235 salt bridge; other site 272563010236 sequence-specific DNA binding site [nucleotide binding]; other site 272563010237 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563010238 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 272563010239 non-specific DNA binding site [nucleotide binding]; other site 272563010240 salt bridge; other site 272563010241 sequence-specific DNA binding site [nucleotide binding]; other site 272563010242 Evidence 7 : Gene remnant 272563010243 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563010244 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 272563010245 non-specific DNA binding site [nucleotide binding]; other site 272563010246 salt bridge; other site 272563010247 sequence-specific DNA binding site [nucleotide binding]; other site 272563010248 Fic family protein [Function unknown]; Region: COG3177 272563010249 Fic/DOC family; Region: Fic; pfam02661 272563010250 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 272563010251 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 272563010252 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 272563010253 DNA binding site [nucleotide binding] 272563010254 Int/Topo IB signature motif; other site 272563010255 active site 272563010256 Tim44-like domain; Region: Tim44; cl09208 272563010257 Evidence 7 : Gene remnant; PubMedId : 19781061 ; this CDS contains a frameshift following codon 103 272563010258 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 272563010259 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 272563010260 SmpB-tmRNA interface; other site 272563010261 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 272563010262 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272563010263 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 272563010264 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 272563010265 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272563010266 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272563010267 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563010268 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 272563010269 Walker A/P-loop; other site 272563010270 ATP binding site [chemical binding]; other site 272563010271 Q-loop/lid; other site 272563010272 ABC transporter signature motif; other site 272563010273 Walker B; other site 272563010274 D-loop; other site 272563010275 H-loop/switch region; other site 272563010276 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 272563010277 ribonuclease R; Region: RNase_R; TIGR02063 272563010278 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 272563010279 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 272563010280 RNB domain; Region: RNB; pfam00773 272563010281 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 272563010282 RNA binding site [nucleotide binding]; other site 272563010283 A new structural DNA glycosylase; Region: AlkD_like; cl11434 272563010284 HEAT repeats; Region: HEAT_2; pfam13646 272563010285 active site 272563010286 Predicted transcriptional regulators [Transcription]; Region: COG1733 272563010287 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 272563010288 substrate binding site [chemical binding]; other site 272563010289 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_2; cd07253 272563010290 dimer interface [polypeptide binding]; other site 272563010291 metal binding site [ion binding]; metal-binding site 272563010292 Predicted permeases [General function prediction only]; Region: COG0679 272563010293 Preprotein translocase SecG subunit; Region: SecG; pfam03840 272563010294 enolase; Provisional; Region: eno; PRK00077 272563010295 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 272563010296 dimer interface [polypeptide binding]; other site 272563010297 metal binding site [ion binding]; metal-binding site 272563010298 substrate binding pocket [chemical binding]; other site 272563010299 phosphoglyceromutase; Provisional; Region: PRK05434 272563010300 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 272563010301 substrate binding site [chemical binding]; other site 272563010302 dimer interface [polypeptide binding]; other site 272563010303 catalytic triad [active] 272563010304 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 272563010305 substrate binding site [chemical binding]; other site 272563010306 hinge regions; other site 272563010307 ADP binding site [chemical binding]; other site 272563010308 catalytic site [active] 272563010309 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 272563010310 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 272563010311 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272563010312 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272563010313 Predicted transcriptional regulator [Transcription]; Region: COG3388 272563010314 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272563010315 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 272563010316 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272563010317 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272563010318 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272563010319 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 272563010320 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 272563010321 catalytic loop [active] 272563010322 iron binding site [ion binding]; other site 272563010323 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272563010324 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 272563010325 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272563010326 phenylhydantoinase; Validated; Region: PRK08323 272563010327 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 272563010328 tetramer interface [polypeptide binding]; other site 272563010329 active site 272563010330 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 272563010331 Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) 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...; Region: DHOD_DHPD_FMN; cd02810 272563010332 active site 272563010333 FMN binding site [chemical binding]; other site 272563010334 substrate binding site [chemical binding]; other site 272563010335 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 272563010336 Sulfate transporter family; Region: Sulfate_transp; cl19250 272563010337 xanthine permease; Region: pbuX; TIGR03173 272563010338 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 272563010339 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272563010340 active site 272563010341 putative substrate binding pocket [chemical binding]; other site 272563010342 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 272563010343 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 272563010344 active site 272563010345 putative substrate binding pocket [chemical binding]; other site 272563010346 peptidase; Reviewed; Region: PRK13004 272563010347 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 272563010348 putative metal binding site [ion binding]; other site 272563010349 putative dimer interface [polypeptide binding]; other site 272563010350 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 272563010351 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563010352 catalytic residue [active] 272563010353 Evidence 7 : Gene remnant; PubMedId : 19781061 ; This CDS appears to have a frameshift mutation around codon 110. 272563010354 GAF domain; Region: GAF; cl17456 272563010355 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 272563010356 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563010357 Walker A motif; other site 272563010358 ATP binding site [chemical binding]; other site 272563010359 Walker B motif; other site 272563010360 arginine finger; other site 272563010361 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 272563010362 homotrimer interaction site [polypeptide binding]; other site 272563010363 putative active site [active] 272563010364 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563010365 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563010366 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 272563010367 DNA binding residues [nucleotide binding] 272563010368 putative dimer interface [polypeptide binding]; other site 272563010369 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 272563010370 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 272563010371 active site 272563010372 catalytic tetrad [active] 272563010373 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 272563010374 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563010375 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563010376 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 272563010377 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 272563010378 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 272563010379 Homeodomain-like domain; Region: HTH_23; pfam13384 272563010380 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 272563010381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563010382 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563010383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563010384 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272563010385 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 272563010386 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272563010387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563010388 Walker A/P-loop; other site 272563010389 ATP binding site [chemical binding]; other site 272563010390 Q-loop/lid; other site 272563010391 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 272563010392 ABC transporter signature motif; other site 272563010393 Walker B; other site 272563010394 D-loop; other site 272563010395 H-loop/switch region; other site 272563010396 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 272563010397 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563010398 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE; Region: HTH_TioE_rpt1; cd04772 272563010399 DNA binding residues [nucleotide binding] 272563010400 putative dimer interface [polypeptide binding]; other site 272563010401 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 272563010402 DNA binding residues [nucleotide binding] 272563010403 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563010404 dimer interface [polypeptide binding]; other site 272563010405 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 272563010406 H+ Antiporter protein; Region: 2A0121; TIGR00900 272563010407 putative substrate translocation pore; other site 272563010408 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272563010409 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272563010410 ABC-2 type transporter; Region: ABC2_membrane; cl17235 272563010411 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272563010412 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 272563010413 Walker A/P-loop; other site 272563010414 ATP binding site [chemical binding]; other site 272563010415 Q-loop/lid; other site 272563010416 ABC transporter signature motif; other site 272563010417 Walker B; other site 272563010418 D-loop; other site 272563010419 H-loop/switch region; other site 272563010420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563010421 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 272563010422 dimerization interface [polypeptide binding]; other site 272563010423 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 272563010424 dimer interface [polypeptide binding]; other site 272563010425 phosphorylation site [posttranslational modification] 272563010426 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 272563010427 ATP binding site [chemical binding]; other site 272563010428 Mg2+ binding site [ion binding]; other site 272563010429 G-X-G motif; other site 272563010430 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563010431 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 272563010432 active site 272563010433 phosphorylation site [posttranslational modification] 272563010434 intermolecular recognition site; other site 272563010435 dimerization interface [polypeptide binding]; other site 272563010436 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 272563010437 DNA binding site [nucleotide binding] 272563010438 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 272563010439 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272563010440 FMN binding site [chemical binding]; other site 272563010441 dimer interface [polypeptide binding]; other site 272563010442 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563010443 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563010444 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272563010445 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272563010446 Predicted transcriptional regulators [Transcription]; Region: COG1695 272563010447 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563010448 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272563010449 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 272563010450 S-adenosylmethionine binding site [chemical binding]; other site 272563010451 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 272563010452 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 272563010453 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563010454 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563010455 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 272563010456 Walker A/P-loop; other site 272563010457 ATP binding site [chemical binding]; other site 272563010458 Q-loop/lid; other site 272563010459 ABC transporter signature motif; other site 272563010460 Walker B; other site 272563010461 D-loop; other site 272563010462 H-loop/switch region; other site 272563010463 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563010464 dimer interface [polypeptide binding]; other site 272563010465 conserved gate region; other site 272563010466 putative PBP binding loops; other site 272563010467 ABC-ATPase subunit interface; other site 272563010468 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 272563010469 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 272563010470 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272563010471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563010472 Walker A/P-loop; other site 272563010473 ATP binding site [chemical binding]; other site 272563010474 Q-loop/lid; other site 272563010475 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 272563010476 ABC transporter signature motif; other site 272563010477 Walker B; other site 272563010478 D-loop; other site 272563010479 H-loop/switch region; other site 272563010480 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 272563010481 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 272563010482 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 272563010483 dimerization interface [polypeptide binding]; other site 272563010484 domain crossover interface; other site 272563010485 redox-dependent activation switch; other site 272563010486 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272563010487 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 272563010488 S-adenosylmethionine binding site [chemical binding]; other site 272563010489 Histidine-specific methyltransferase, SAM-dependent; Region: Methyltransf_33; pfam10017 272563010490 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272563010491 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272563010492 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272563010493 metal binding site [ion binding]; metal-binding site 272563010494 dimer interface [polypeptide binding]; other site 272563010495 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 272563010496 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 272563010497 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 272563010498 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272563010499 dimer interface [polypeptide binding]; other site 272563010500 active site 272563010501 catalytic residue [active] 272563010502 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 272563010503 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 272563010504 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 272563010505 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272563010506 dimer interface [polypeptide binding]; other site 272563010507 active site 272563010508 catalytic residue [active] 272563010509 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272563010510 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 272563010511 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272563010512 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 272563010513 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 272563010514 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 272563010515 active site 272563010516 trimer interface [polypeptide binding]; other site 272563010517 substrate binding site [chemical binding]; other site 272563010518 CoA binding site [chemical binding]; other site 272563010519 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 272563010520 putative CoA binding site [chemical binding]; other site 272563010521 putative trimer interface [polypeptide binding]; other site 272563010522 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u2; cd03402 272563010523 prohibitin homologues; Region: PHB; smart00244 272563010524 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272563010525 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 272563010526 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272563010527 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563010528 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563010529 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563010530 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563010531 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563010532 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563010533 active site 272563010534 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 272563010535 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 272563010536 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563010537 Walker A motif; other site 272563010538 ATP binding site [chemical binding]; other site 272563010539 Walker B motif; other site 272563010540 arginine finger; other site 272563010541 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272563010542 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 272563010543 single-stranded DNA-binding protein; Provisional; Region: PRK05813 272563010544 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 272563010545 dimer interface [polypeptide binding]; other site 272563010546 ssDNA binding site [nucleotide binding]; other site 272563010547 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563010548 Predicted permeases [General function prediction only]; Region: COG0730 272563010549 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272563010550 proline racemase; Provisional; Region: PRK13969 272563010551 hydroxyproline-2-epimerase; Provisional; Region: PRK13971; cl19687 272563010552 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 272563010553 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 272563010554 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl19416 272563010555 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 272563010556 FOG: CBS domain [General function prediction only]; Region: COG0517 272563010557 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_13; cd04626 272563010558 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272563010559 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 272563010560 Walker A motif; other site 272563010561 ATP binding site [chemical binding]; other site 272563010562 Walker B motif; other site 272563010563 arginine finger; other site 272563010564 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 272563010565 Formin Homology Region 1; Region: Drf_FH1; pfam06346 272563010566 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 272563010567 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272563010568 SLBB domain; Region: SLBB; pfam10531 272563010569 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 272563010570 NodB motif; other site 272563010571 active site 272563010572 catalytic site [active] 272563010573 metal binding site [ion binding]; metal-binding site 272563010574 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272563010575 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 272563010576 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272563010577 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272563010578 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272563010579 TSCPD domain; Region: TSCPD; cl14834 272563010580 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 272563010581 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272563010582 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272563010583 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 272563010584 Subtilase family; Region: Peptidase_S8; pfam00082 272563010585 active site 272563010586 catalytic triad [active] 272563010587 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272563010588 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 272563010589 active site 272563010590 phosphorylation site [posttranslational modification] 272563010591 intermolecular recognition site; other site 272563010592 dimerization interface [polypeptide binding]; other site 272563010593 LytTr DNA-binding domain; Region: LytTR; smart00850 272563010594 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 272563010595 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272563010596 active site 272563010597 HIGH motif; other site 272563010598 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272563010599 KMSKS motif; other site 272563010600 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 272563010601 tRNA binding surface [nucleotide binding]; other site 272563010602 anticodon binding site; other site 272563010603 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 272563010604 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272563010605 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 272563010606 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 272563010607 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 272563010608 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 272563010609 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 272563010610 PhoU domain; Region: PhoU; pfam01895 272563010611 PhoU domain; Region: PhoU; pfam01895 272563010612 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 272563010613 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 272563010614 Walker A/P-loop; other site 272563010615 ATP binding site [chemical binding]; other site 272563010616 Q-loop/lid; other site 272563010617 ABC transporter signature motif; other site 272563010618 Walker B; other site 272563010619 D-loop; other site 272563010620 H-loop/switch region; other site 272563010621 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 272563010622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563010623 dimer interface [polypeptide binding]; other site 272563010624 conserved gate region; other site 272563010625 putative PBP binding loops; other site 272563010626 ABC-ATPase subunit interface; other site 272563010627 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 272563010628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563010629 dimer interface [polypeptide binding]; other site 272563010630 conserved gate region; other site 272563010631 putative PBP binding loops; other site 272563010632 ABC-ATPase subunit interface; other site 272563010633 Evidence 7 : Gene remnant 272563010634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563010635 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 272563010636 active site 272563010637 phosphorylation site [posttranslational modification] 272563010638 intermolecular recognition site; other site 272563010639 dimerization interface [polypeptide binding]; other site 272563010640 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 272563010641 DNA binding site [nucleotide binding] 272563010642 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; cl09440 272563010643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272563010644 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 272563010645 dimer interface [polypeptide binding]; other site 272563010646 phosphorylation site [posttranslational modification] 272563010647 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 272563010648 ATP binding site [chemical binding]; other site 272563010649 Mg2+ binding site [ion binding]; other site 272563010650 G-X-G motif; other site 272563010651 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563010652 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 272563010653 active site 272563010654 phosphorylation site [posttranslational modification] 272563010655 intermolecular recognition site; other site 272563010656 dimerization interface [polypeptide binding]; other site 272563010657 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 272563010658 DNA binding site [nucleotide binding] 272563010659 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 272563010660 oligoendopeptidase F; Region: pepF; TIGR00181 272563010661 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 272563010662 active site 272563010663 Zn binding site [ion binding]; other site 272563010664 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272563010665 MgtC family; Region: MgtC; pfam02308 272563010666 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 272563010667 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 272563010668 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 272563010669 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 272563010670 G1 box; other site 272563010671 GTP/Mg2+ binding site [chemical binding]; other site 272563010672 Switch I region; other site 272563010673 G2 box; other site 272563010674 G3 box; other site 272563010675 Switch II region; other site 272563010676 G4 box; other site 272563010677 G5 box; other site 272563010678 Nucleoside recognition; Region: Gate; pfam07670 272563010679 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272563010680 Nucleoside recognition; Region: Gate; pfam07670 272563010681 Virus attachment protein p12 family; Region: P12; pfam12669 272563010682 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 272563010683 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 272563010684 dimer interface [polypeptide binding]; other site 272563010685 active site 272563010686 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 272563010687 dimer interface [polypeptide binding]; other site 272563010688 active site 272563010689 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 272563010690 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 272563010691 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; cl00025 272563010692 active site 272563010693 active pocket/dimerization site; other site 272563010694 phosphorylation site [posttranslational modification] 272563010695 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 272563010696 active site 272563010697 phosphorylation site [posttranslational modification] 272563010698 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 272563010699 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563010700 Walker A motif; other site 272563010701 ATP binding site [chemical binding]; other site 272563010702 Walker B motif; other site 272563010703 arginine finger; other site 272563010704 Transcriptional antiterminator [Transcription]; Region: COG3933 272563010705 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; cl00025 272563010706 active pocket/dimerization site; other site 272563010707 active site 272563010708 phosphorylation site [posttranslational modification] 272563010709 PRD domain; Region: PRD; pfam00874 272563010710 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 272563010711 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 272563010712 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 272563010713 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 272563010714 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 272563010715 dimer interface [polypeptide binding]; other site 272563010716 active site 272563010717 glycine loop; other site 272563010718 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 272563010719 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563010720 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 272563010721 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 272563010722 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 272563010723 PDZ domain of trypsin-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 272563010724 protein binding site [polypeptide binding]; other site 272563010725 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 272563010726 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 272563010727 active site 272563010728 dimer interface [polypeptide binding]; other site 272563010729 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 272563010730 dimer interface [polypeptide binding]; other site 272563010731 active site 272563010732 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 272563010733 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272563010734 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272563010735 PhoU domain; Region: PhoU; pfam01895 272563010736 PhoU domain; Region: PhoU; pfam01895 272563010737 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 272563010738 SEC-C motif; Region: SEC-C; pfam02810 272563010739 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 272563010740 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272563010741 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 272563010742 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272563010743 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272563010744 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272563010745 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 272563010746 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 272563010747 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 272563010748 Walker A motif; other site 272563010749 ATP binding site [chemical binding]; other site 272563010750 Walker B motif; other site 272563010751 Sec1 family; Region: Sec1; cl15415 272563010752 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 272563010753 hypothetical protein; Provisional; Region: PRK06851 272563010754 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 272563010755 Walker A motif; other site 272563010756 ATP binding site [chemical binding]; other site 272563010757 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272563010758 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 272563010759 putative substrate translocation pore; other site 272563010760 Predicted GTPase [General function prediction only]; Region: COG0218 272563010761 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 272563010762 G1 box; other site 272563010763 GTP/Mg2+ binding site [chemical binding]; other site 272563010764 Switch I region; other site 272563010765 G2 box; other site 272563010766 G3 box; other site 272563010767 Switch II region; other site 272563010768 G4 box; other site 272563010769 G5 box; other site 272563010770 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272563010771 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 272563010772 Biogenesis of lysosome-related organelles complex-1 subunit 2; Region: BLOC1_2; pfam10046 272563010773 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 272563010774 Walker A motif; other site 272563010775 ATP binding site [chemical binding]; other site 272563010776 Walker B motif; other site 272563010777 arginine finger; other site 272563010778 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272563010779 Chromate transporter; Region: Chromate_transp; pfam02417 272563010780 Chromate transporter; Region: Chromate_transp; pfam02417 272563010781 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272563010782 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 272563010783 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 272563010784 Walker A motif; other site 272563010785 ATP binding site [chemical binding]; other site 272563010786 Walker B motif; other site 272563010787 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 272563010788 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272563010789 oligomer interface [polypeptide binding]; other site 272563010790 active site residues [active] 272563010791 trigger factor; Provisional; Region: tig; PRK01490 272563010792 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 272563010793 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 272563010794 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272563010795 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 272563010796 active site 272563010797 metal binding site [ion binding]; metal-binding site 272563010798 homotetramer interface [polypeptide binding]; other site 272563010799 ribonuclease PH; Reviewed; Region: rph; PRK00173 272563010800 Ribonuclease PH; Region: RNase_PH_bact; cd11362 272563010801 hexamer interface [polypeptide binding]; other site 272563010802 active site 272563010803 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 272563010804 active site 272563010805 dimerization interface [polypeptide binding]; other site 272563010806 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272563010807 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 272563010808 nucleotide binding pocket [chemical binding]; other site 272563010809 K-X-D-G motif; other site 272563010810 catalytic site [active] 272563010811 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272563010812 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272563010813 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 272563010814 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 272563010815 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 272563010816 Dimer interface [polypeptide binding]; other site 272563010817 BRCT sequence motif; other site 272563010818 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 272563010819 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 272563010820 putative ligand binding site [chemical binding]; other site 272563010821 NAD binding site [chemical binding]; other site 272563010822 catalytic site [active] 272563010823 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 272563010824 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 272563010825 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 272563010826 putative substrate translocation pore; other site 272563010827 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 272563010828 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563010829 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 272563010830 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563010831 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 272563010832 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 272563010833 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 272563010834 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563010835 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 272563010836 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 272563010837 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 272563010838 [4Fe-4S] binding site [ion binding]; other site 272563010839 molybdopterin cofactor binding site; other site 272563010840 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_CT_Formate-Dh_H; cd02790 272563010841 molybdopterin cofactor binding site; other site 272563010842 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 272563010843 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563010844 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 272563010845 active site 272563010846 phosphorylation site [posttranslational modification] 272563010847 intermolecular recognition site; other site 272563010848 dimerization interface [polypeptide binding]; other site 272563010849 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 272563010850 DNA binding site [nucleotide binding] 272563010851 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 272563010852 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 272563010853 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 272563010854 Protein of unknown function (DUF1062); Region: DUF1062; pfam06353 272563010855 Mor transcription activator family; Region: Mor; cl02360 272563010856 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 272563010857 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 272563010858 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 272563010859 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 272563010860 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 272563010861 Int/Topo IB signature motif; other site 272563010862 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 272563010863 Helix-turn-helix domain; Region: HTH_16; pfam12645 272563010864 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 272563010865 DNA binding residues [nucleotide binding] 272563010866 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563010867 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 272563010868 non-specific DNA binding site [nucleotide binding]; other site 272563010869 salt bridge; other site 272563010870 sequence-specific DNA binding site [nucleotide binding]; other site 272563010871 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 272563010872 active site 272563010873 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272563010874 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272563010875 WHG domain; Region: WHG; pfam13305 272563010876 TfoX N-terminal domain; Region: TfoX_N; cl17592 272563010877 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 272563010878 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563010879 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 272563010880 Lysozyme-like; Region: Lysozyme_like; pfam13702 272563010881 catalytic residue [active] 272563010882 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563010883 Haemolysin-III related; Region: HlyIII; cl03831 272563010884 GAGA binding protein-like family; Region: GAGA_bind; pfam06217 272563010885 AAA-like domain; Region: AAA_10; pfam12846 272563010886 TcpE family; Region: TcpE; pfam12648 272563010887 Antirestriction protein (ArdA); Region: ArdA; pfam07275 272563010888 Evidence 7 : Gene remnant; PubMedId : 12568329,12568327, 17650959, 11157942, 11073898, 8863741 ; This CDS appears to have a frameshift following codon 72 272563010889 Superinfection exclusion protein B; Region: SieB; pfam14163 272563010890 Replication initiation factor; Region: Rep_trans; pfam02486 272563010891 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 272563010892 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272563010893 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272563010894 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272563010895 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 272563010896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 272563010897 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563010898 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272563010899 BclB C-terminal domain; Region: exospore_TM; TIGR03721 272563010900 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272563010901 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 272563010902 putative metal binding site; other site 272563010903 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 272563010904 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 272563010905 binding surface 272563010906 TPR motif; other site 272563010907 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272563010908 oligomer interface [polypeptide binding]; other site 272563010909 active site residues [active] 272563010910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272563010911 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272563010912 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 272563010913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563010914 DNA-binding site [nucleotide binding]; DNA binding site 272563010915 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 272563010916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563010917 homodimer interface [polypeptide binding]; other site 272563010918 catalytic residue [active] 272563010919 B3/4 domain; Region: B3_4; cl19243 272563010920 Nitroreductase-like family 3. 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_3; cd02139 272563010921 putative FMN binding site [chemical binding]; other site 272563010922 Predicted transcriptional regulators [Transcription]; Region: COG1733 272563010923 DJ-1 family protein; Region: not_thiJ; TIGR01383 272563010924 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 272563010925 conserved cys residue [active] 272563010926 Evidence 7 : Gene remnant; PubMedId : 19632156,16438681, 12675791 272563010927 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272563010928 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563010929 ABC transporter; Region: ABC_tran_2; pfam12848 272563010930 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 272563010931 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563010932 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 272563010933 active site 272563010934 phosphorylation site [posttranslational modification] 272563010935 intermolecular recognition site; other site 272563010936 dimerization interface [polypeptide binding]; other site 272563010937 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 272563010938 DNA binding site [nucleotide binding] 272563010939 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272563010940 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 272563010941 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 272563010942 ABC-2 type transporter; Region: ABC2_membrane; cl17235 272563010943 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 272563010944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563010945 Walker A/P-loop; other site 272563010946 ATP binding site [chemical binding]; other site 272563010947 Q-loop/lid; other site 272563010948 ABC transporter signature motif; other site 272563010949 Walker B; other site 272563010950 D-loop; other site 272563010951 H-loop/switch region; other site 272563010952 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 272563010953 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563010954 metal binding site [ion binding]; metal-binding site 272563010955 active site 272563010956 I-site; other site 272563010957 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 272563010958 GTPase RsgA; Reviewed; Region: PRK01889 272563010959 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 272563010960 RNA binding site [nucleotide binding]; other site 272563010961 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 272563010962 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272563010963 GTP/Mg2+ binding site [chemical binding]; other site 272563010964 G4 box; other site 272563010965 G5 box; other site 272563010966 G1 box; other site 272563010967 Switch I region; other site 272563010968 G2 box; other site 272563010969 G3 box; other site 272563010970 Switch II region; other site 272563010971 RNHCP domain; Region: RNHCP; pfam12647 272563010972 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272563010973 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272563010974 catalytic residues [active] 272563010975 catalytic nucleophile [active] 272563010976 Recombinase; Region: Recombinase; pfam07508 272563010977 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272563010978 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 272563010979 Helix-turn-helix domain; Region: HTH_16; pfam12645 272563010980 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272563010981 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 272563010982 DNA binding residues [nucleotide binding] 272563010983 magnesium-transporting ATPase; Provisional; Region: PRK15122 272563010984 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 272563010985 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563010986 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272563010987 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 272563010988 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272563010989 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 272563010990 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272563010991 MgtC family; Region: MgtC; pfam02308 272563010992 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563010993 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 272563010994 DNA binding site [nucleotide binding] 272563010995 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 272563010996 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 272563010997 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272563010998 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272563010999 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 272563011000 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272563011001 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272563011002 Evidence 7 : Gene remnant; PubMedId : 12568329,12568327, 17650959, 11157942, 11073898, 8863741 272563011003 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 272563011004 Lysozyme-like; Region: Lysozyme_like; pfam13702 272563011005 NlpC/P60 family; Region: NLPC_P60; pfam00877 272563011006 Evidence 7 : Gene remnant; PubMedId : 12568329,12568327, 17650959, 11157942, 11073898, 8863741 ; This CDS contains an in-frame TAG stop codon. 272563011007 AAA-like domain; Region: AAA_10; pfam12846 272563011008 TcpE family; Region: TcpE; pfam12648 272563011009 Antirestriction protein (ArdA); Region: ArdA; pfam07275 272563011010 Antirestriction protein (ArdA); Region: ArdA; cl01953 272563011011 Evidence 7 : Gene remnant; PubMedId : 12568329,12568327, 17650959, 11157942, 11073898, 8863741 272563011012 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 272563011013 non-specific DNA binding site [nucleotide binding]; other site 272563011014 salt bridge; other site 272563011015 sequence-specific DNA binding site [nucleotide binding]; other site 272563011016 Replication initiation factor; Region: Rep_trans; pfam02486 272563011017 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 272563011018 Walker A motif; other site 272563011019 ATP binding site [chemical binding]; other site 272563011020 Walker B motif; other site 272563011021 arginine finger; other site 272563011022 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272563011023 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272563011024 Cna protein B-type domain; Region: Cna_B; pfam05738 272563011025 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 272563011026 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272563011027 TRAM domain; Region: TRAM; cl01282 272563011028 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 272563011029 S-adenosylmethionine binding site [chemical binding]; other site 272563011030 pyruvate kinase; Provisional; Region: PRK06354 272563011031 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; cd00288 272563011032 domain interfaces; other site 272563011033 active site 272563011034 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; cl17700 272563011035 6-phosphofructokinase; Provisional; Region: PRK03202 272563011036 active site 272563011037 ADP/pyrophosphate binding site [chemical binding]; other site 272563011038 dimerization interface [polypeptide binding]; other site 272563011039 allosteric effector site; other site 272563011040 fructose-1,6-bisphosphate binding site; other site 272563011041 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 272563011042 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 272563011043 active site 272563011044 PHP Thumb interface [polypeptide binding]; other site 272563011045 metal binding site [ion binding]; metal-binding site 272563011046 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272563011047 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 272563011048 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 272563011049 generic binding surface II; other site 272563011050 generic binding surface I; other site 272563011051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 272563011052 WhiA N-terminal LAGLIDADG-like domain; Region: WhiA_N; pfam10298 272563011053 WhiA LAGLIDADG-like domain; Region: LAGLIDADG_WhiA; pfam14527 272563011054 WhiA C-terminal HTH domain; Region: HTH_WhiA; pfam02650 272563011055 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 272563011056 active site 272563011057 Ap6A binding site [chemical binding]; other site 272563011058 nudix motif; other site 272563011059 metal binding site [ion binding]; metal-binding site 272563011060 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 272563011061 phosphate binding site [ion binding]; other site 272563011062 putative substrate binding pocket [chemical binding]; other site 272563011063 dimer interface [polypeptide binding]; other site 272563011064 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 272563011065 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 272563011066 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 272563011067 active site 272563011068 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 272563011069 FAD binding domain; Region: FAD_binding_4; pfam01565 272563011070 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272563011071 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 272563011072 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 272563011073 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 272563011074 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 272563011075 putative active site [active] 272563011076 catalytic site [active] 272563011077 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 272563011078 putative active site [active] 272563011079 catalytic site [active] 272563011080 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 272563011081 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 272563011082 putative dimer interface [polypeptide binding]; other site 272563011083 [2Fe-2S] cluster binding site [ion binding]; other site 272563011084 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 272563011085 dimer interface [polypeptide binding]; other site 272563011086 [2Fe-2S] cluster binding site [ion binding]; other site 272563011087 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 272563011088 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272563011089 SLBB domain; Region: SLBB; pfam10531 272563011090 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 272563011091 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 272563011092 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272563011093 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 272563011094 catalytic loop [active] 272563011095 iron binding site [ion binding]; other site 272563011096 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 272563011097 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 272563011098 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 272563011099 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 272563011100 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 272563011101 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 272563011102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563011103 Walker A/P-loop; other site 272563011104 ATP binding site [chemical binding]; other site 272563011105 Q-loop/lid; other site 272563011106 ABC transporter signature motif; other site 272563011107 Walker B; other site 272563011108 D-loop; other site 272563011109 H-loop/switch region; other site 272563011110 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 272563011111 HPr kinase/phosphorylase; Provisional; Region: PRK05428 272563011112 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 272563011113 Hpr binding site; other site 272563011114 active site 272563011115 homohexamer subunit interaction site [polypeptide binding]; other site 272563011116 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272563011117 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272563011118 GIY-YIG motif/motif A; other site 272563011119 active site 272563011120 catalytic site [active] 272563011121 putative DNA binding site [nucleotide binding]; other site 272563011122 metal binding site [ion binding]; metal-binding site 272563011123 UvrB/uvrC motif; Region: UVR; pfam02151 272563011124 SPRY domain; Region: SPRY; cl02614 272563011125 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272563011126 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 272563011127 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272563011128 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272563011129 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 272563011130 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 272563011131 excinuclease ABC subunit B; Provisional; Region: PRK05298 272563011132 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 272563011133 ATP binding site [chemical binding]; other site 272563011134 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 272563011135 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 272563011136 nucleotide binding region [chemical binding]; other site 272563011137 ATP-binding site [chemical binding]; other site 272563011138 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272563011139 UvrB/uvrC motif; Region: UVR; pfam02151 272563011140 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 272563011141 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 272563011142 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 272563011143 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272563011144 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272563011145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563011146 dimer interface [polypeptide binding]; other site 272563011147 conserved gate region; other site 272563011148 putative PBP binding loops; other site 272563011149 ABC-ATPase subunit interface; other site 272563011150 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272563011151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563011152 dimer interface [polypeptide binding]; other site 272563011153 conserved gate region; other site 272563011154 putative PBP binding loops; other site 272563011155 ABC-ATPase subunit interface; other site 272563011156 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 272563011157 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 272563011158 Walker A/P-loop; other site 272563011159 ATP binding site [chemical binding]; other site 272563011160 Q-loop/lid; other site 272563011161 ABC transporter signature motif; other site 272563011162 Walker B; other site 272563011163 D-loop; other site 272563011164 H-loop/switch region; other site 272563011165 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 272563011166 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 272563011167 Sirohaem biosynthesis protein central; Region: Sirohm_synth_M; pfam14824 272563011168 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 272563011169 dimer interface [polypeptide binding]; other site 272563011170 active site 272563011171 Schiff base residues; other site 272563011172 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 272563011173 active site 272563011174 SAM binding site [chemical binding]; other site 272563011175 homodimer interface [polypeptide binding]; other site 272563011176 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 272563011177 active site 272563011178 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 272563011179 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 272563011180 domain interfaces; other site 272563011181 active site 272563011182 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 272563011183 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 272563011184 active site 272563011185 C-terminal domain interface [polypeptide binding]; other site 272563011186 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 272563011187 active site 272563011188 N-terminal domain interface [polypeptide binding]; other site 272563011189 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 272563011190 active site 272563011191 SAM binding site [chemical binding]; other site 272563011192 homodimer interface [polypeptide binding]; other site 272563011193 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 272563011194 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 272563011195 active site 272563011196 SAM binding site [chemical binding]; other site 272563011197 homodimer interface [polypeptide binding]; other site 272563011198 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 272563011199 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 272563011200 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 272563011201 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 272563011202 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 272563011203 active site 272563011204 SAM binding site [chemical binding]; other site 272563011205 homodimer interface [polypeptide binding]; other site 272563011206 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 272563011207 S-adenosylmethionine binding site [chemical binding]; other site 272563011208 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 272563011209 active site 272563011210 putative homodimer interface [polypeptide binding]; other site 272563011211 SAM binding site [chemical binding]; other site 272563011212 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 272563011213 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 272563011214 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 272563011215 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 272563011216 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272563011217 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 272563011218 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 272563011219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563011220 homodimer interface [polypeptide binding]; other site 272563011221 catalytic residue [active] 272563011222 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 272563011223 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 272563011224 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; cd01983 272563011225 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 272563011226 catalytic triad [active] 272563011227 cobyric acid synthase; Provisional; Region: PRK00784 272563011228 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 272563011229 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272563011230 catalytic triad [active] 272563011231 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 272563011232 catalytic core [active] 272563011233 cobalamin synthase; Reviewed; Region: cobS; PRK00235 272563011234 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 272563011235 homotrimer interface [polypeptide binding]; other site 272563011236 Walker A motif; other site 272563011237 GTP binding site [chemical binding]; other site 272563011238 Walker B motif; other site 272563011239 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 272563011240 putative dimer interface [polypeptide binding]; other site 272563011241 active site pocket [active] 272563011242 putative cataytic base [active] 272563011243 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 272563011244 active site 272563011245 catalytic residues [active] 272563011246 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 272563011247 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 272563011248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563011249 homodimer interface [polypeptide binding]; other site 272563011250 catalytic residue [active] 272563011251 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272563011252 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272563011253 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 272563011254 active site 272563011255 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563011256 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 272563011257 active site 272563011258 P-loop; other site 272563011259 phosphorylation site [posttranslational modification] 272563011260 methionine cluster; other site 272563011261 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 272563011262 active site 272563011263 phosphorylation site [posttranslational modification] 272563011264 metal binding site [ion binding]; metal-binding site 272563011265 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 272563011266 oligomer interface [polypeptide binding]; other site 272563011267 active site 272563011268 metal binding site [ion binding]; metal-binding site 272563011269 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563011270 HTH domain; Region: HTH_11; pfam08279 272563011271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 272563011272 PRD domain; Region: PRD; pfam00874 272563011273 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 272563011274 active site 272563011275 P-loop; other site 272563011276 phosphorylation site [posttranslational modification] 272563011277 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 272563011278 active site 272563011279 phosphorylation site [posttranslational modification] 272563011280 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 272563011281 intersubunit interface [polypeptide binding]; other site 272563011282 active site 272563011283 zinc binding site [ion binding]; other site 272563011284 Na+ binding site [ion binding]; other site 272563011285 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 272563011286 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 272563011287 dimer interface [polypeptide binding]; other site 272563011288 active site 272563011289 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 272563011290 putative active site [active] 272563011291 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272563011292 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 272563011293 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 272563011294 putative substrate binding site [chemical binding]; other site 272563011295 putative ATP binding site [chemical binding]; other site 272563011296 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272563011297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563011298 DNA-binding site [nucleotide binding]; DNA binding site 272563011299 UTRA domain; Region: UTRA; pfam07702 272563011300 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 272563011301 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 272563011302 active site 272563011303 dimer interface [polypeptide binding]; other site 272563011304 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 272563011305 putative deacylase active site [active] 272563011306 C-terminal peptidase (prc); Region: prc; TIGR00225 272563011307 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 272563011308 protein binding site [polypeptide binding]; other site 272563011309 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272563011310 Catalytic dyad [active] 272563011311 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 272563011312 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 272563011313 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 272563011314 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 272563011315 PYR/PP interface [polypeptide binding]; other site 272563011316 dimer interface [polypeptide binding]; other site 272563011317 TPP binding site [chemical binding]; other site 272563011318 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272563011319 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 272563011320 TPP-binding site [chemical binding]; other site 272563011321 dimer interface [polypeptide binding]; other site 272563011322 PemK-like protein; Region: PemK; pfam02452 272563011323 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 272563011324 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 272563011325 alanine racemase; Reviewed; Region: alr; PRK00053 272563011326 active site 272563011327 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272563011328 dimer interface [polypeptide binding]; other site 272563011329 substrate binding site [chemical binding]; other site 272563011330 catalytic residues [active] 272563011331 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl19192 272563011332 FOG: CBS domain [General function prediction only]; Region: COG0517 272563011333 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_23; cd04636 272563011334 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 272563011335 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 272563011336 gamma subunit interface [polypeptide binding]; other site 272563011337 epsilon subunit interface [polypeptide binding]; other site 272563011338 LBP interface [polypeptide binding]; other site 272563011339 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 272563011340 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272563011341 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 272563011342 alpha subunit interaction interface [polypeptide binding]; other site 272563011343 Walker A motif; other site 272563011344 ATP binding site [chemical binding]; other site 272563011345 Walker B motif; other site 272563011346 inhibitor binding site; inhibition site 272563011347 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272563011348 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 272563011349 core domain interface [polypeptide binding]; other site 272563011350 delta subunit interface [polypeptide binding]; other site 272563011351 epsilon subunit interface [polypeptide binding]; other site 272563011352 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 272563011353 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 272563011354 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 272563011355 beta subunit interaction interface [polypeptide binding]; other site 272563011356 Walker A motif; other site 272563011357 ATP binding site [chemical binding]; other site 272563011358 Walker B motif; other site 272563011359 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272563011360 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 272563011361 F0F1 ATP synthase subunit B; Provisional; Region: PRK14473 272563011362 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 272563011363 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 272563011364 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 272563011365 ATP synthase I chain; Region: ATP_synt_I; pfam03899 272563011366 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 272563011367 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 272563011368 catalytic motif [active] 272563011369 Zn binding site [ion binding]; other site 272563011370 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272563011371 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563011372 active site 272563011373 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 272563011374 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272563011375 active site 272563011376 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 272563011377 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 272563011378 ZIP Zinc transporter; Region: Zip; cl00437 272563011379 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272563011380 This domain is found in peptide chain release factors; Region: PCRF; smart00937 272563011381 RF-1 domain; Region: RF-1; pfam00472 272563011382 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 272563011383 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 272563011384 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 272563011385 S-adenosylmethionine binding site [chemical binding]; other site 272563011386 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 272563011387 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 272563011388 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]; Region: COG5124 272563011389 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 272563011390 transcription termination factor Rho; Provisional; Region: PRK12608 272563011391 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 272563011392 RNA binding site [nucleotide binding]; other site 272563011393 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 272563011394 multimer interface [polypeptide binding]; other site 272563011395 Walker A motif; other site 272563011396 ATP binding site [chemical binding]; other site 272563011397 Walker B motif; other site 272563011398 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272563011399 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 272563011400 active site 272563011401 tetramer interface; other site 272563011402 oligoendopeptidase F; Region: pepF; TIGR00181 272563011403 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 272563011404 active site 272563011405 Zn binding site [ion binding]; other site 272563011406 stage II sporulation protein E; Region: spore_II_E; TIGR02865 272563011407 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 272563011408 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 272563011409 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 272563011410 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 272563011411 nucleotide binding site [chemical binding]; other site 272563011412 Septum formation initiator; Region: DivIC; cl17659 272563011413 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 272563011414 YabP family; Region: YabP; cl06766 272563011415 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 272563011416 RNA binding surface [nucleotide binding]; other site 272563011417 histone-like DNA-binding protein HU; Region: HU; cd13831 272563011418 dimer interface [polypeptide binding]; other site 272563011419 DNA binding site [nucleotide binding] 272563011420 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 272563011421 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 272563011422 active site 272563011423 homodimer interface [polypeptide binding]; other site 272563011424 SAM binding site [chemical binding]; other site 272563011425 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 272563011426 homodimer interface [polypeptide binding]; other site 272563011427 metal binding site [ion binding]; metal-binding site 272563011428 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 272563011429 homodimer interface [polypeptide binding]; other site 272563011430 active site 272563011431 putative chemical substrate binding site [chemical binding]; other site 272563011432 metal binding site [ion binding]; metal-binding site 272563011433 stage V sporulation protein B; Region: spore_V_B; TIGR02900 272563011434 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 272563011435 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 272563011436 stage V sporulation protein T; Region: spore_V_T; TIGR02851 272563011437 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 272563011438 SurA N-terminal domain; Region: SurA_N_3; cl07813 272563011439 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 272563011440 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 272563011441 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 272563011442 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 272563011443 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 272563011444 ATP binding site [chemical binding]; other site 272563011445 putative Mg++ binding site [ion binding]; other site 272563011446 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 272563011447 nucleotide binding region [chemical binding]; other site 272563011448 ATP-binding site [chemical binding]; other site 272563011449 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 272563011450 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 272563011451 putative active site [active] 272563011452 catalytic residue [active] 272563011453 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 272563011454 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 272563011455 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 272563011456 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 272563011457 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; cl18944 272563011458 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 272563011459 Walker A motif; other site 272563011460 ATP binding site [chemical binding]; other site 272563011461 Walker B motif; other site 272563011462 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272563011463 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 272563011464 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 272563011465 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272563011466 Fimbrial assembly protein (PilN); Region: PilN; cl19830 272563011467 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272563011468 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272563011469 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 272563011470 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 272563011471 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 272563011472 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 272563011473 Walker A motif; other site 272563011474 ATP binding site [chemical binding]; other site 272563011475 Walker B motif; other site 272563011476 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 272563011477 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 272563011478 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 272563011479 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 272563011480 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563011481 active site 272563011482 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 272563011483 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 272563011484 Substrate binding site; other site 272563011485 Mg++ binding site; other site 272563011486 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 272563011487 active site 272563011488 substrate binding site [chemical binding]; other site 272563011489 CoA binding site [chemical binding]; other site 272563011490 regulatory protein SpoVG; Reviewed; Region: PRK13259 272563011491 pur operon repressor; Provisional; Region: PRK09213 272563011492 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 272563011493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272563011494 active site 272563011495 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272563011496 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272563011497 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272563011498 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272563011499 Dynein, heavy chain [Cytoskeleton]; Region: DYN1; COG5245 272563011500 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272563011501 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 272563011502 peptidase T-like protein; Region: PepT-like; TIGR01883 272563011503 metal binding site [ion binding]; metal-binding site 272563011504 putative dimer interface [polypeptide binding]; other site 272563011505 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 272563011506 S-adenosylmethionine binding site [chemical binding]; other site 272563011507 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 272563011508 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 272563011509 putative active site [active] 272563011510 putative metal binding site [ion binding]; other site 272563011511 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 272563011512 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272563011513 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 272563011514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563011515 dimer interface [polypeptide binding]; other site 272563011516 conserved gate region; other site 272563011517 putative PBP binding loops; other site 272563011518 ABC-ATPase subunit interface; other site 272563011519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563011520 dimer interface [polypeptide binding]; other site 272563011521 conserved gate region; other site 272563011522 putative PBP binding loops; other site 272563011523 ABC-ATPase subunit interface; other site 272563011524 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 272563011525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563011526 Walker A/P-loop; other site 272563011527 ATP binding site [chemical binding]; other site 272563011528 Q-loop/lid; other site 272563011529 ABC transporter signature motif; other site 272563011530 Walker B; other site 272563011531 D-loop; other site 272563011532 H-loop/switch region; other site 272563011533 TOBE domain; Region: TOBE_2; pfam08402 272563011534 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 272563011535 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 272563011536 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563011537 dimer interface [polypeptide binding]; other site 272563011538 conserved gate region; other site 272563011539 putative PBP binding loops; other site 272563011540 ABC-ATPase subunit interface; other site 272563011541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 272563011542 dimer interface [polypeptide binding]; other site 272563011543 conserved gate region; other site 272563011544 putative PBP binding loops; other site 272563011545 ABC-ATPase subunit interface; other site 272563011546 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 272563011547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563011548 Walker A/P-loop; other site 272563011549 ATP binding site [chemical binding]; other site 272563011550 Q-loop/lid; other site 272563011551 ABC transporter signature motif; other site 272563011552 Walker B; other site 272563011553 D-loop; other site 272563011554 H-loop/switch region; other site 272563011555 TOBE domain; Region: TOBE_2; pfam08402 272563011556 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 272563011557 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 272563011558 active site 272563011559 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 272563011560 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 272563011561 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 272563011562 active site 272563011563 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 272563011564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563011565 Walker A/P-loop; other site 272563011566 ATP binding site [chemical binding]; other site 272563011567 Q-loop/lid; other site 272563011568 ABC transporter signature motif; other site 272563011569 Walker B; other site 272563011570 D-loop; other site 272563011571 H-loop/switch region; other site 272563011572 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 272563011573 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 272563011574 Walker A/P-loop; other site 272563011575 ATP binding site [chemical binding]; other site 272563011576 Q-loop/lid; other site 272563011577 ABC transporter signature motif; other site 272563011578 Walker B; other site 272563011579 D-loop; other site 272563011580 H-loop/switch region; other site 272563011581 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272563011582 Phosphonate metabolizm protein PhnJ; Region: PhnJ; pfam06007 272563011583 Bacterial phosphonate metabolizm protein (PhnI); Region: PhnI; pfam05861 272563011584 phosphonate C-P lyase system protein PhnH; Region: PhnH_redo; TIGR03292 272563011585 phosphonate C-P lyase system protein PhnG; Region: PhnG_redo; TIGR03293 272563011586 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 272563011587 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272563011588 active site 272563011589 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 272563011590 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272563011591 active site 272563011592 HIGH motif; other site 272563011593 KMSKS motif; other site 272563011594 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272563011595 tRNA binding surface [nucleotide binding]; other site 272563011596 anticodon binding site; other site 272563011597 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 272563011598 dimer interface [polypeptide binding]; other site 272563011599 putative tRNA-binding site [nucleotide binding]; other site 272563011600 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 272563011601 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 272563011602 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 272563011603 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 272563011604 active site 272563011605 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272563011606 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 272563011607 putative DNA binding site [nucleotide binding]; other site 272563011608 putative Zn2+ binding site [ion binding]; other site 272563011609 AsnC family; Region: AsnC_trans_reg; pfam01037 272563011610 HD domain; Region: HD; pfam01966 272563011611 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 272563011612 putative SAM binding site [chemical binding]; other site 272563011613 putative homodimer interface [polypeptide binding]; other site 272563011614 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 272563011615 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 272563011616 S-adenosylmethionine binding site [chemical binding]; other site 272563011617 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 272563011618 DNA polymerase III subunit delta'; Validated; Region: PRK05564 272563011619 DNA polymerase III subunit delta'; Validated; Region: PRK08485 272563011620 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 272563011621 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 272563011622 TMP-binding site; other site 272563011623 ATP-binding site [chemical binding]; other site 272563011624 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 272563011625 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; cl18945 272563011626 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563011627 catalytic residue [active] 272563011628 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 272563011629 Domain of unknown function (DUF378); Region: DUF378; pfam04070 272563011630 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 272563011631 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 272563011632 dimer interface [polypeptide binding]; other site 272563011633 putative anticodon binding site; other site 272563011634 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 272563011635 motif 1; other site 272563011636 active site 272563011637 motif 2; other site 272563011638 motif 3; other site 272563011639 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 272563011640 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 272563011641 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272563011642 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 272563011643 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 272563011644 FMN binding site [chemical binding]; other site 272563011645 active site 272563011646 catalytic residues [active] 272563011647 substrate binding site [chemical binding]; other site 272563011648 pantothenate kinase; Reviewed; Region: PRK13318 272563011649 Predicted membrane protein [Function unknown]; Region: COG4684 272563011650 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 272563011651 putative active site pocket [active] 272563011652 cleavage site 272563011653 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 272563011654 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 272563011655 putative Zn2+ binding site [ion binding]; other site 272563011656 putative DNA binding site [nucleotide binding]; other site 272563011657 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 272563011658 FtsH Extracellular; Region: FtsH_ext; pfam06480 272563011659 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272563011660 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 272563011661 Walker A motif; other site 272563011662 ATP binding site [chemical binding]; other site 272563011663 Walker B motif; other site 272563011664 arginine finger; other site 272563011665 Peptidase family M41; Region: Peptidase_M41; pfam01434 272563011666 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 272563011667 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 272563011668 Ligand Binding Site [chemical binding]; other site 272563011669 TilS substrate C-terminal domain; Region: TilS_C; smart00977 272563011670 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 272563011671 glutamate racemase; Provisional; Region: PRK00865 272563011672 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272563011673 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 272563011674 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272563011675 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563011676 DNA-binding site [nucleotide binding]; DNA binding site 272563011677 FCD domain; Region: FCD; pfam07729 272563011678 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 272563011679 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 272563011680 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272563011681 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 272563011682 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 272563011683 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 272563011684 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 272563011685 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 272563011686 YabG peptidase U57; Region: Peptidase_U57; pfam05582 272563011687 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 272563011688 active site 272563011689 dimer interface [polypeptide binding]; other site 272563011690 hypothetical protein; Provisional; Region: PRK05590 272563011691 UPF0489 domain; Region: UPF0489; pfam12640 272563011692 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 272563011693 Na binding site [ion binding]; other site 272563011694 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 272563011695 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 272563011696 putative substrate translocation pore; other site 272563011697 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 272563011698 homodimer interface [polypeptide binding]; other site 272563011699 substrate-cofactor binding pocket; other site 272563011700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563011701 catalytic residue [active] 272563011702 multiple promoter invertase; Provisional; Region: mpi; PRK13413 272563011703 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 272563011704 catalytic residues [active] 272563011705 catalytic nucleophile [active] 272563011706 Presynaptic Site I dimer interface [polypeptide binding]; other site 272563011707 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272563011708 Synaptic Flat tetramer interface [polypeptide binding]; other site 272563011709 Synaptic Site I dimer interface [polypeptide binding]; other site 272563011710 DNA binding site [nucleotide binding] 272563011711 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 272563011712 DNA-binding interface [nucleotide binding]; DNA binding site 272563011713 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 272563011714 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 272563011715 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 272563011716 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 272563011717 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 272563011718 S-adenosylmethionine binding site [chemical binding]; other site 272563011719 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272563011720 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 272563011721 active site 272563011722 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 272563011723 DNA binding residues [nucleotide binding] 272563011724 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 272563011725 drug binding residues [chemical binding]; other site 272563011726 dimer interface [polypeptide binding]; other site 272563011727 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272563011728 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272563011729 FtsX-like permease family; Region: FtsX; pfam02687 272563011730 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272563011731 FtsX-like permease family; Region: FtsX; pfam02687 272563011732 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272563011733 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 272563011734 Walker A/P-loop; other site 272563011735 ATP binding site [chemical binding]; other site 272563011736 Q-loop/lid; other site 272563011737 ABC transporter signature motif; other site 272563011738 Walker B; other site 272563011739 D-loop; other site 272563011740 H-loop/switch region; other site 272563011741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272563011742 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 272563011743 dimer interface [polypeptide binding]; other site 272563011744 phosphorylation site [posttranslational modification] 272563011745 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 272563011746 ATP binding site [chemical binding]; other site 272563011747 Mg2+ binding site [ion binding]; other site 272563011748 G-X-G motif; other site 272563011749 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563011750 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 272563011751 active site 272563011752 phosphorylation site [posttranslational modification] 272563011753 intermolecular recognition site; other site 272563011754 dimerization interface [polypeptide binding]; other site 272563011755 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 272563011756 DNA binding site [nucleotide binding] 272563011757 Evidence 7 : Gene remnant 272563011758 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272563011759 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272563011760 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272563011761 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 272563011762 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272563011763 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272563011764 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 272563011765 IMP binding site; other site 272563011766 dimer interface [polypeptide binding]; other site 272563011767 interdomain contacts; other site 272563011768 partial ornithine binding site; other site 272563011769 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272563011770 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 272563011771 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272563011772 catalytic site [active] 272563011773 subunit interface [polypeptide binding]; other site 272563011774 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272563011775 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272563011776 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 272563011777 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 272563011778 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272563011779 ATP-grasp domain; Region: ATP-grasp_4; cl17255 272563011780 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 272563011781 IMP binding site; other site 272563011782 dimer interface [polypeptide binding]; other site 272563011783 interdomain contacts; other site 272563011784 partial ornithine binding site; other site 272563011785 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272563011786 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 272563011787 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272563011788 catalytic site [active] 272563011789 subunit interface [polypeptide binding]; other site 272563011790 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 272563011791 active site 272563011792 dimer interface [polypeptide binding]; other site 272563011793 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 272563011794 Nitroreductase family; Region: Nitroreductase; pfam00881 272563011795 FMN binding site [chemical binding]; other site 272563011796 dimer interface [polypeptide binding]; other site 272563011797 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272563011798 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 272563011799 Homocysteine S-methyltransferase; Region: S-methyl_trans; cl14105 272563011800 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 272563011801 substrate binding pocket [chemical binding]; other site 272563011802 dimer interface [polypeptide binding]; other site 272563011803 inhibitor binding site; inhibition site 272563011804 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 272563011805 B12 binding site [chemical binding]; other site 272563011806 cobalt ligand [ion binding]; other site 272563011807 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 272563011808 S-ribosylhomocysteinase; Provisional; Region: PRK02260 272563011809 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 272563011810 dimer interface [polypeptide binding]; other site 272563011811 phosphorylation site [posttranslational modification] 272563011812 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 272563011813 ATP binding site [chemical binding]; other site 272563011814 Mg2+ binding site [ion binding]; other site 272563011815 G-X-G motif; other site 272563011816 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272563011817 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 272563011818 active site 272563011819 phosphorylation site [posttranslational modification] 272563011820 intermolecular recognition site; other site 272563011821 dimerization interface [polypeptide binding]; other site 272563011822 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 272563011823 DNA binding site [nucleotide binding] 272563011824 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 272563011825 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 272563011826 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 272563011827 Ligand Binding Site [chemical binding]; other site 272563011828 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272563011829 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 272563011830 putative active site [active] 272563011831 putative metal binding site [ion binding]; other site 272563011832 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272563011833 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 272563011834 putative NAD(P) binding site [chemical binding]; other site 272563011835 active site 272563011836 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272563011837 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 272563011838 active site 272563011839 motif I; other site 272563011840 motif II; other site 272563011841 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 272563011842 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 272563011843 dihydroorotase; Provisional; Region: PRK09237 272563011844 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 272563011845 active site 272563011846 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 272563011847 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 272563011848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563011849 Walker A/P-loop; other site 272563011850 ATP binding site [chemical binding]; other site 272563011851 Q-loop/lid; other site 272563011852 ABC transporter signature motif; other site 272563011853 Walker B; other site 272563011854 D-loop; other site 272563011855 H-loop/switch region; other site 272563011856 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 272563011857 Evidence 7 : Gene remnant; PubMedId : 19781061,19100867 ; This CDS contains an in-frame stop codon. 272563011858 Staygreen protein; Region: Staygreen; pfam12638 272563011859 Protein of unknown function, DUF488; Region: DUF488; pfam04343 272563011860 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 272563011861 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563011862 DNA binding residues [nucleotide binding] 272563011863 drug binding residues [chemical binding]; other site 272563011864 dimer interface [polypeptide binding]; other site 272563011865 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 272563011866 potassium/proton antiporter; Reviewed; Region: PRK05326 272563011867 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 272563011868 TrkA-C domain; Region: TrkA_C; pfam02080 272563011869 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 272563011870 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 272563011871 dimer interface [polypeptide binding]; other site 272563011872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 272563011873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272563011874 Coenzyme A binding pocket [chemical binding]; other site 272563011875 YmaF family; Region: YmaF; pfam12788 272563011876 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272563011877 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272563011878 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 272563011879 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 272563011880 PhnA protein; Region: PhnA; pfam03831 272563011881 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 272563011882 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 272563011883 Walker A/P-loop; other site 272563011884 ATP binding site [chemical binding]; other site 272563011885 Q-loop/lid; other site 272563011886 ABC transporter signature motif; other site 272563011887 Walker B; other site 272563011888 D-loop; other site 272563011889 H-loop/switch region; other site 272563011890 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 272563011891 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 272563011892 PAS domain; Region: PAS_9; pfam13426 272563011893 PAS domain S-box; Region: sensory_box; TIGR00229 272563011894 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 272563011895 putative active site [active] 272563011896 heme pocket [chemical binding]; other site 272563011897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272563011898 metal binding site [ion binding]; metal-binding site 272563011899 active site 272563011900 I-site; other site 272563011901 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 272563011902 Entner-Doudoroff aldolase; Region: eda; TIGR01182 272563011903 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272563011904 active site 272563011905 intersubunit interface [polypeptide binding]; other site 272563011906 catalytic residue [active] 272563011907 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 272563011908 inhibitor site; inhibition site 272563011909 active site 272563011910 dimer interface [polypeptide binding]; other site 272563011911 catalytic residue [active] 272563011912 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 272563011913 putative active site [active] 272563011914 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 272563011915 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 272563011916 active site 272563011917 P-loop; other site 272563011918 phosphorylation site [posttranslational modification] 272563011919 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272563011920 Mga helix-turn-helix domain; Region: Mga; pfam05043 272563011921 PRD domain; Region: PRD; pfam00874 272563011922 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 272563011923 active site 272563011924 P-loop; other site 272563011925 phosphorylation site [posttranslational modification] 272563011926 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 272563011927 active site 272563011928 phosphorylation site [posttranslational modification] 272563011929 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 272563011930 catalytic triad [active] 272563011931 conserved cis-peptide bond; other site 272563011932 CAAX protease self-immunity; Region: Abi; pfam02517 272563011933 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 272563011934 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272563011935 DNA binding residues [nucleotide binding] 272563011936 dimer interface [polypeptide binding]; other site 272563011937 Evidence 7 : Gene remnant 272563011938 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 272563011939 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 272563011940 Uncharacterized conserved protein [Function unknown]; Region: COG5276 272563011941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272563011942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 272563011943 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 272563011944 dimerization interface [polypeptide binding]; other site 272563011945 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 272563011946 substrate binding site [chemical binding]; other site 272563011947 ATP binding site [chemical binding]; other site 272563011948 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 272563011949 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 272563011950 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563011951 catalytic residue [active] 272563011952 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 272563011953 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 272563011954 active site 272563011955 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 272563011956 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563011957 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272563011958 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272563011959 DNA-binding site [nucleotide binding]; DNA binding site 272563011960 UTRA domain; Region: UTRA; cl17743 272563011961 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 272563011962 active site 272563011963 methionine cluster; other site 272563011964 phosphorylation site [posttranslational modification] 272563011965 metal binding site [ion binding]; metal-binding site 272563011966 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 272563011967 active site 272563011968 P-loop; other site 272563011969 phosphorylation site [posttranslational modification] 272563011970 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 272563011971 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 272563011972 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 272563011973 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 272563011974 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 272563011975 Zn binding site [ion binding]; other site 272563011976 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 272563011977 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 272563011978 DNA replication protein DnaC; Validated; Region: PRK06835 272563011979 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 272563011980 Walker A motif; other site 272563011981 ATP binding site [chemical binding]; other site 272563011982 Walker B motif; other site 272563011983 arginine finger; other site 272563011984 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 272563011985 GDP-binding site [chemical binding]; other site 272563011986 ACT binding site; other site 272563011987 IMP binding site; other site 272563011988 replicative DNA helicase; Region: DnaB; TIGR00665 272563011989 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272563011990 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 272563011991 Walker A motif; other site 272563011992 ATP binding site [chemical binding]; other site 272563011993 Walker B motif; other site 272563011994 DNA binding loops [nucleotide binding] 272563011995 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272563011996 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272563011997 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272563011998 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 272563011999 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272563012000 metal binding site [ion binding]; metal-binding site 272563012001 DHH family; Region: DHH; pfam01368 272563012002 DHHA1 domain; Region: DHHA1; pfam02272 272563012003 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 272563012004 MazG-like family; Region: MazG-like; pfam12643 272563012005 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 272563012006 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 272563012007 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 272563012008 dimer interface [polypeptide binding]; other site 272563012009 ssDNA binding site [nucleotide binding]; other site 272563012010 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272563012011 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 272563012012 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 272563012013 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 272563012014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272563012015 homodimer interface [polypeptide binding]; other site 272563012016 catalytic residue [active] 272563012017 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 272563012018 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 272563012019 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 272563012020 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 272563012021 CPxP motif; other site 272563012022 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272563012023 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 272563012024 non-specific DNA binding site [nucleotide binding]; other site 272563012025 salt bridge; other site 272563012026 sequence-specific DNA binding site [nucleotide binding]; other site 272563012027 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 272563012028 binding surface 272563012029 TPR motif; other site 272563012030 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 272563012031 binding surface 272563012032 TPR motif; other site 272563012033 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272563012034 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272563012035 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272563012036 Sporulation and spore germination; Region: Germane; pfam10646 272563012037 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 272563012038 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272563012039 catalytic residue [active] 272563012040 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 272563012041 ParB-like nuclease domain; Region: ParBc; pfam02195 272563012042 KorB domain; Region: KorB; pfam08535 272563012043 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272563012044 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 272563012045 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 272563012046 P-loop; other site 272563012047 Magnesium ion binding site [ion binding]; other site 272563012048 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 272563012049 ParB-like nuclease domain; Region: ParB; smart00470 272563012050 Evidence 7 : Gene remnant; PubMedId : 19781061,12001236, 17238915, 17573471 ; This CDS contains a frameshift around residue 63 272563012051 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 272563012052 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 272563012053 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 272563012054 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272563012055 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272563012056 Protein of unknown function (DUF677); Region: DUF677; pfam05055 272563012057 trmE is a tRNA modification GTPase; Region: trmE; cd04164 272563012058 G1 box; other site 272563012059 GTP/Mg2+ binding site [chemical binding]; other site 272563012060 Switch I region; other site 272563012061 G2 box; other site 272563012062 Switch II region; other site 272563012063 G3 box; other site 272563012064 G4 box; other site 272563012065 G5 box; other site 272563012066 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272563012067 Jag N-terminus; Region: Jag_N; pfam14804 272563012068 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 272563012069 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 272563012070 G-X-X-G motif; other site 272563012071 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 272563012072 RxxxH motif; other site 272563012073 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 272563012074 Haemolytic domain; Region: Haemolytic; pfam01809 272563012075 ribonuclease P; Reviewed; Region: rnpA; PRK00499 272563012076 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399